Psyllid ID: psy450

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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-------410-------420-------430-------440-------450-------460-------470-------48
Protein Sequence
MEYIESFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVLIRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLSVAPELLVA
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHHHHccccccEEEEEcccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccEEEEEcccccccccHHHHccccEEEEcccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccEEEEEccccccHHHHHHHHHHHccccEEEEccccHHHHcHHHHHHHHHHHHHHHHHccccEEEEEccccccccccccccccccHHHHHHHHHHHHHcccccccEEEEEccccccccccccccccccccEEEEcccccHHHHHHHHHHHHccccccccccHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccEEcHHHHHHHHHcccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHHHccccccccccHHHcHcccEccccEEEcccEEEEEcccHHHHEcccccEEEEccccccccEEEEccccccccccHHHHHHHccEEEcccccHHHHHHHHHHHHccccccccHcccHHHHHHHHHcccccHcHHHHHHHHHHHHHHHHcHHHcEEcHHHHHHHHHccccccccEEEEEccccccHHccccHHHHHHHHHHHHHcccccccccccEEEEEcccccHHHHHHHHHHHHcccEEEEEccHHHHHHHHcHcHHHHHHHHHHHHHcccEEEEEEcHHHHccccccccccccHHHHHHHHHHHHHccHHccccEEEEEEccccccccHHHcccccccEEEEEcccccHHHHHHHHHHHHccccccccccHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHcHccHHHHcccEEcHHHHHHHHHHccccccHHHEEEcccccHHHccccccc
Coil and Loop (DISEMBL)
MEYIESFHNRINEDILSHLLtnyfatpryhhlnDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCsfdsvnvksnetkdqQCKQQHKKKLVLIRKQIQKLFLKTinvlpltepERRLLIQYQLDclggdygfDASLVEYLSSvtsgferhdltCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQsrysdqldapsvpnvswedigglSKLKAEILSTFrgvnrtsglkrsglllygppgtgkTLIAKAVATECRMNflavkgpelLNKYIGQSEENIRNVFLKArsaapcvvffdeldslaprrgqedqssgvMDRVVSQLLAEmdgvhtsqdVFILgatnrvdlldpailrpgrldkslYVGLYEDRISQLGVLKAVVRKFKlsddvsldslvhhfpsqmsgadiYSICSNAWTRAIRRIItsapqvksapviVTMDDFLgacslatapdkfsqsvapdnyslsvapellva
Flexible Loop (DISEMBL)
MEYIESFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNetkdqqckqqhkKKLVLIRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVtsgferhdltCLVRLSVKNKMLkqginkrdlqkeDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFrgvnrtsglkrsglllygppgtGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLaprrgqedqssgvMDRVVSQLLAEMDGVHTSQDVFILGATNrvdlldpailrpgrldKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHfpsqmsgadIYSICSNAWTRAIRRIITsapqvksapVIVTMDDFLGACSLATAPDkfsqsvapdnyslsvapellva
Low Complexity Region (SEG)
MEYIESFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETkdqqckqqhkkkLVLIRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLSVAPELLVA
Disordered region (IsUnstruct)
****ESFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNV***************KKLVLIRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDL***DFQQIYDDL************VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELD*****************RVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATA************************
Disordered Region (DISOPRED)
MEYIESFHNRINEDILSHLLTNYFATPRYHHLNDIVKI********************VKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVLIRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSL****************VVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII***********IVTMDDFLGAC********************SVAPELLV*
Disordered Region (DISEMBL)
MEYIESFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNV*****************LVLIRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAP***********MDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLSVAPELLVA
Disordered Region (DISPRO)
MEYIESFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVLIRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPR*******SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLSVAPELL**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEYIESFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVLIRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLSVAPELLVA
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	478	2.2.26 [Sep-21-2011]
Q13608	980	Peroxisome assembly facto	yes	N/A	0.730	0.356	0.485	2e-86
Q99LC9	981	Peroxisome assembly facto	yes	N/A	0.575	0.280	0.572	2e-85
P54777	978	Peroxisome assembly facto	yes	N/A	0.575	0.281	0.572	6e-85
Q8RY16	941	Peroxisome biogenesis pro	yes	N/A	0.566	0.287	0.564	4e-84
Q54CS8	1201	Peroxisomal biogenesis fa	yes	N/A	0.742	0.295	0.429	2e-82
Q6FW67	1017	Peroxisomal biogenesis fa	yes	N/A	0.602	0.283	0.498	2e-79
Q74Z13	1021	Peroxisomal biogenesis fa	yes	N/A	0.587	0.275	0.519	2e-78
Q9HG03	1459	Peroxisomal biogenesis fa	yes	N/A	0.560	0.183	0.507	3e-77
P36966	1024	Peroxisomal biogenesis fa	yes	N/A	0.692	0.323	0.439	4e-77
Q9C1E9	1388	Peroxisomal biogenesis fa	N/A	N/A	0.604	0.208	0.460	4e-76

>sp|Q13608|PEX6_HUMAN Peroxisome assembly factor 2 OS=Homo sapiens GN=PEX6 PE=1 SV=2

 Score =  320 bits (819), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 183/377 (48%), Positives = 251/377 (66%), Gaps = 28/377 (7%)

Query: 99  IQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLV 158
           +Q  F   + V  L+E +R  +++     L    G + +L + L+   +GF   DL  L+
Sbjct: 583 VQTAFPHELEVPALSEGQRLSILRALTAHL--PLGQEVNLAQ-LARRCAGFVVGDLYALL 639

Query: 159 RLS-------VKNKMLKQGINKRD----------LQKEDFQQIYDDLQSRYSDQLDAPSV 201
             S       +KN  L  G+ + D          L  EDF Q  + LQ+ +S  + AP +
Sbjct: 640 THSSRAACTRIKNSGLAGGLTEEDEGELCAAGFPLLAEDFGQALEQLQTAHSQAVGAPKI 699

Query: 202 PNVSWEDIGGLSKLKAEILSTFR-----GVNRTSGLKRSGLLLYGPPGTGKTLIAKAVAT 256
           P+VSW D+GGL ++K EIL T +         + GL+RSGLLL+GPPGTGKTL+AKAVAT
Sbjct: 700 PSVSWHDVGGLQEVKKEILETIQLPLEHPELLSLGLRRSGLLLHGPPGTGKTLLAKAVAT 759

Query: 257 ECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSS 316
           EC + FL+VKGPEL+N Y+GQSEEN+R VF +AR+AAPC++FFDELDSLAP RG+   S 
Sbjct: 760 ECSLTFLSVKGPELINMYVGQSEENVREVFARARAAAPCIIFFDELDSLAPSRGRSGDSG 819

Query: 317 GVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQ 376
           GVMDRVVSQLLAE+DG+H++QDVF++GATNR DLLDPA+LRPGR DK ++VG  EDR SQ
Sbjct: 820 GVMDRVVSQLLAELDGLHSTQDVFVIGATNRPDLLDPALLRPGRFDKLVFVGANEDRASQ 879

Query: 377 LGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII---TSAPQV 433
           L VL A+ RKFKL   VSL +++   P Q++GAD+YS+CS+A T A++R +       + 
Sbjct: 880 LRVLSAITRKFKLEPSVSLVNVLDCCPPQLTGADLYSLCSDAMTAALKRRVHDLEEGLEP 939

Query: 434 KSAPVIVTMDDFLGACS 450
            S+ +++TM+D L A +
Sbjct: 940 GSSALMLTMEDLLQAAA 956

Involved in peroxisome biosynthesis. Required for stability of the PTS1 receptor. Anchored by PEX26 to peroxisome membranes, possibly to form heteromeric AAA ATPase complexes required for the import of proteins into peroxisomes.
Homo sapiens (taxid: 9606)

>sp|Q99LC9|PEX6_MOUSE Peroxisome assembly factor 2 OS=Mus musculus GN=Pex6 PE=2 SV=1

 Score =  317 bits (811), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 162/283 (57%), Positives = 214/283 (75%), Gaps = 8/283 (2%)

Query: 176 LQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFR-----GVNRTS 230
           L  EDF Q  D LQ+ +S  + AP +P+VSW D+GGL  +K EIL T +         + 
Sbjct: 675 LLAEDFGQALDQLQTAHSQAVGAPRIPSVSWHDVGGLQDVKKEILETIQLPLEHPELLSL 734

Query: 231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR 290
           GL+RSGLLL+GPPGTGKTL+AKAVATEC + FL+VKGPEL+N Y+GQSEEN+R VF +AR
Sbjct: 735 GLRRSGLLLHGPPGTGKTLLAKAVATECSLTFLSVKGPELINMYVGQSEENVREVFARAR 794

Query: 291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL 350
           +AAPC++FFDELDSLAP RG+   S GVMDRVVSQLLAE+DG+H++QDVF++GATNR DL
Sbjct: 795 AAAPCIIFFDELDSLAPSRGRSGDSGGVMDRVVSQLLAELDGLHSTQDVFVIGATNRPDL 854

Query: 351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGAD 410
           LDPA+LRPGR DK ++VG  EDR SQL VL A+ RKFKL   VSL +++   P Q++GAD
Sbjct: 855 LDPALLRPGRFDKLVFVGASEDRASQLRVLSAITRKFKLEASVSLANVLDCCPPQLTGAD 914

Query: 411 IYSICSNAWTRAIRRII---TSAPQVKSAPVIVTMDDFLGACS 450
           +YS+CS+A   A++R +       +++S+ +++TM+D L A +
Sbjct: 915 LYSLCSDAMMTALKRRVRDLEEGLELRSSALLLTMEDLLQAAA 957

Involved in peroxisome biosynthesis. Required for stability of the PTS1 receptor. Probably required for protein import into peroxisomes. Anchored by PEX26 to peroxisome membranes, possibly to form heteromeric AAA ATPase complexes required for the import of proteins into peroxisomes.

Mus musculus (taxid: 10090)

>sp|P54777|PEX6_RAT Peroxisome assembly factor 2 OS=Rattus norvegicus GN=Pex6 PE=1 SV=1

 Score =  315 bits (806), Expect = 6e-85,   Method: Compositional matrix adjust.
 Identities = 162/283 (57%), Positives = 213/283 (75%), Gaps = 8/283 (2%)

Query: 176 LQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFR-----GVNRTS 230
           L  EDF Q  D LQ+ +S  + AP +P+VSW D+GGL  +K EIL T +         + 
Sbjct: 672 LLAEDFGQALDQLQTAHSQAVGAPKIPSVSWHDVGGLQDVKKEILETIQLPLEHPELLSL 731

Query: 231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR 290
           GL+RSGLLL+GPPGTGKTL+AKAVATEC + FL+VKGPEL+N Y+GQSEEN+R VF +AR
Sbjct: 732 GLRRSGLLLHGPPGTGKTLLAKAVATECSLTFLSVKGPELINMYVGQSEENVREVFARAR 791

Query: 291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL 350
           +AAPC++FFDELDSLAP RG+   S GVMDRVVSQLLAE+DG+H++QDVF++GATNR DL
Sbjct: 792 AAAPCIIFFDELDSLAPSRGRSGDSGGVMDRVVSQLLAELDGLHSTQDVFVIGATNRPDL 851

Query: 351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGAD 410
           LDPA+LRPGR DK ++VG  EDR SQL VL A+ RKFKL   VSL +++   P Q++GAD
Sbjct: 852 LDPALLRPGRFDKLVFVGASEDRASQLRVLSAITRKFKLEASVSLMNVLDCCPPQLTGAD 911

Query: 411 IYSICSNAWTRAIRRII---TSAPQVKSAPVIVTMDDFLGACS 450
           +YS+CS+A   A++R +       + +S+ +++TM+D L A +
Sbjct: 912 LYSLCSDAMMTALKRRVRDLEEGLEPRSSALLLTMEDLLQAAA 954

Involved in peroxisome biosynthesis. Required for stability of the PTS1 receptor. Probably required for protein import into peroxisomes. Anchored by PEX26 to peroxisome membranes, possibly to form heteromeric AAA ATPase complexes required for the import of proteins into peroxisomes.

Rattus norvegicus (taxid: 10116)

>sp|Q8RY16|PEX6_ARATH Peroxisome biogenesis protein 6 OS=Arabidopsis thaliana GN=PEX6 PE=1 SV=1

 Score =  312 bits (799), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 161/285 (56%), Positives = 211/285 (74%), Gaps = 14/285 (4%)

Query: 178 KEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRG--VNR---TSGL 232
           KEDF +  D  + R +  L AP VPNV W+D+GGL  +K  IL T +   +++   +SGL
Sbjct: 629 KEDFTKALDRSKKRNASALGAPKVPNVKWDDVGGLEDVKTSILDTVQLPLLHKDLFSSGL 688

Query: 233 -KRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARS 291
            KRSG+LLYGPPGTGKTL+AKAVATEC +NFL+VKGPEL+N YIG+SE+N+R++F KARS
Sbjct: 689 RKRSGVLLYGPPGTGKTLLAKAVATECSLNFLSVKGPELINMYIGESEKNVRDIFEKARS 748

Query: 292 AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-TSQDVFILGATNRVDL 350
           A PCV+FFDELDSLAP RG    S GVMDRVVSQ+LAE+DG+  +SQD+FI+GA+NR DL
Sbjct: 749 ARPCVIFFDELDSLAPARGASGDSGGVMDRVVSQMLAEIDGLSDSSQDLFIIGASNRPDL 808

Query: 351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGAD 410
           +DPA+LRPGR DK LYVG+  D   +  VLKA+ RKFKLS+DVSL S+    PS  +GAD
Sbjct: 809 IDPALLRPGRFDKLLYVGVNADASYRERVLKALTRKFKLSEDVSLYSVAKKCPSTFTGAD 868

Query: 411 IYSICSNAWTRAIRRIITSA-----PQVKSAP--VIVTMDDFLGA 448
           +Y++C++AW +A +R ++ +     P  +  P  V+V   DF+ A
Sbjct: 869 MYALCADAWFQAAKRKVSKSDSGDMPTEEDDPDSVVVEYVDFIKA 913

Involved in peroxisomal-targeting signal one (PTS1) and peroxisomal-targeting signal two (PTS2) protein import. Required for jasmonate biosynthesis. Necessary for the developmental elimination of obsolete peroxisome matix proteins. May form heteromeric AAA ATPase complexes required for the import of proteins. May be involved in PEX5 recycling.

Arabidopsis thaliana (taxid: 3702)

>sp|Q54CS8|PEX6_DICDI Peroxisomal biogenesis factor 6 OS=Dictyostelium discoideum GN=pex6 PE=3 SV=1

 Score =  306 bits (784), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 165/384 (42%), Positives = 243/384 (63%), Gaps = 29/384 (7%)

Query: 95   IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDL 154
            +  +++  F   I +    E +R  +++Y    L  D G   S ++ LS  T+ F   +L
Sbjct: 792  LSNKVRNWFKHEITLNSPDENQRFKILKYLTKNLPIDIGNTVS-IKNLSIRTASFLNSNL 850

Query: 155  TCLVRLSVKNKM-----LKQGINKRD-----------LQKEDFQQIYDDLQSRYSDQLDA 198
              L++ S  N +     ++Q +N              +  +D Q+   ++Q   S  + A
Sbjct: 851  RALIQRSSINALKRVLSIQQMMNDEIKPIEIYNCGFLVMGDDIQKSLSEMQEYQSSSIGA 910

Query: 199  PSVPNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGL-KRSGLLLYGPPGTGKTLIAK 252
            P +PNVSW+D+GGL+ +K+EI+ T +          SG+ KRSG+LL+GPPGTGKTL+AK
Sbjct: 911  PKIPNVSWDDVGGLANVKSEIMDTIQLPLEHPHLFASGIGKRSGILLFGPPGTGKTLLAK 970

Query: 253  AVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE 312
            A+ATEC +NFL+VKGPEL+N YIG+SE+NIR +F KAR A PCV+FFDELDSLAP RG  
Sbjct: 971  AIATECSLNFLSVKGPELINMYIGESEKNIREIFNKARQAKPCVIFFDELDSLAPSRGNG 1030

Query: 313  DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
              S GVMDRVVSQLLAE+DG+  S DVFI+GATNR DLLD +++RPGRLD+ LY+G+  +
Sbjct: 1031 ADSGGVMDRVVSQLLAELDGMQKSSDVFIIGATNRPDLLDSSLMRPGRLDRLLYLGISSE 1090

Query: 373  RISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA-- 430
            + +Q  +L+A+ RKF L+DDV L  +V + P  ++GAD Y++ S+A + A    IT++  
Sbjct: 1091 KENQFKILQALTRKFNLADDVDLRKVVENCPMNLTGADFYALASDAMSNAFHERITASIN 1150

Query: 431  ----PQVKSAPVIVTMDDFLGACS 450
                 + ++  +IV  + F+ A +
Sbjct: 1151 GEINEEEQNQKLIVYQNHFIKAVN 1174

Required for biogenesis of peroxisomes.

Dictyostelium discoideum (taxid: 44689)

>sp|Q6FW67|PEX6_CANGA Peroxisomal biogenesis factor 6 OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=PEX6 PE=3 SV=1

 Score =  296 bits (758), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 150/301 (49%), Positives = 205/301 (68%), Gaps = 13/301 (4%)

Query: 139 VEYLSSVTSGFERHDLTCLVRLSVK------NKMLKQGINKRDLQKEDFQQIYDDLQSRY 192
           +  LS  ++G   +D+  ++ L+V       N  L    NK  +     Q   + ++S Y
Sbjct: 644 ISTLSLHSAGLSPYDIQYIISLAVADSLRKCNNYLLWRQNKIKVDMISIQNALEKVRSDY 703

Query: 193 SDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGLK-RSGLLLYGPPGTG 246
           S  + APS+PNV+W+D+GGLS +K  I+ T     +      SGLK RSG+L YGPPGTG
Sbjct: 704 SASIGAPSIPNVTWDDVGGLSSVKDAIMETIDLPLKHPELFGSGLKKRSGILFYGPPGTG 763

Query: 247 KTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLA 306
           KTL+AKA+AT   +NF +VKGPELLN YIG+SE N+R VF KAR A PCV+FFDE+DS+A
Sbjct: 764 KTLLAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQKARDAKPCVIFFDEVDSVA 823

Query: 307 PRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD-VFILGATNRVDLLDPAILRPGRLDKSL 365
           P+RG +  S GVMDR+VSQLLAE+DG+ +  D VFI+GATNR DLLD A+LRPGR DK +
Sbjct: 824 PKRGNQGDSGGVMDRIVSQLLAELDGMSSDGDGVFIIGATNRPDLLDEALLRPGRFDKLI 883

Query: 366 YVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR 425
           Y+G+ + R  Q  +++A+ RKFK+S D++ D LV  FP   +GAD Y++CS+A  +A+ R
Sbjct: 884 YLGIADTREKQANIMRALTRKFKVSSDINFDELVSDFPFSYTGADFYALCSDAMLKAMTR 943

Query: 426 I 426
           I
Sbjct: 944 I 944

Involved in peroxisome biosynthesis.

Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) (taxid: 284593)

>sp|Q74Z13|PEX6_ASHGO Peroxisomal biogenesis factor 6 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=PEX6 PE=3 SV=1

 Score =  293 bits (750), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 150/289 (51%), Positives = 190/289 (65%), Gaps = 8/289 (2%)

Query: 145 VTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNV 204
           + S  E   + C  R   K  ML QG   R +   D     +  +  +SD + AP +PNV
Sbjct: 662 IRSIVESAKVCCYQRSKEKQHMLWQG-GYRYINSADLSAAINKARDEFSDSIGAPKIPNV 720

Query: 205 SWEDIGGLSKLKAEILST------FRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC 258
            WEDIGGL  +K EIL T      F  +  +   KRSG+L YGPPGTGKTL+AKAVAT  
Sbjct: 721 FWEDIGGLEMVKGEILDTIDMPLKFPELFASGMKKRSGILFYGPPGTGKTLLAKAVATNF 780

Query: 259 RMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGV 318
            +NF +VKGPELLN YIG+SE N+R VF +AR A PCV+FFDELDS+AP+RG +  S GV
Sbjct: 781 SLNFFSVKGPELLNMYIGESEANVRRVFQRARDAKPCVIFFDELDSVAPKRGNQGDSGGV 840

Query: 319 MDRVVSQLLAEMDGVHTSQD-VFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQL 377
           MDR+VSQLLAE+DG+ T  D +F++GATNR DLLD A+LRPGR DK LY+G+ +    Q 
Sbjct: 841 MDRIVSQLLAELDGLSTGGDGLFVIGATNRPDLLDEALLRPGRFDKLLYLGISDTNEKQA 900

Query: 378 GVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRI 426
            +L+A+ RKF L  DVSLD L    P   +GAD Y++CS+A   A+ RI
Sbjct: 901 NILRALTRKFTLDPDVSLDDLAASCPFTYTGADFYALCSDAMLNAMTRI 949

Involved in peroxisome biosynthesis.

Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) (taxid: 284811)

>sp|Q9HG03|PEX6_PENCH Peroxisomal biogenesis factor 6 OS=Penicillium chrysogenum GN=pex6 PE=3 SV=1

 Score =  289 bits (740), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 141/278 (50%), Positives = 194/278 (69%), Gaps = 10/278 (3%)

Query: 162  VKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILS 221
            V++ +L  G   R + K DF    +  +  ++D + AP +PNV W+D+GGL+ +K  ++ 
Sbjct: 985  VRDVLLAGGDGARGVTKADFDAAVEAARKNFADSIGAPKIPNVGWDDVGGLTNVKDALVE 1044

Query: 222  TFR-GVNR----TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYI 275
            T +  + R      G+K RSG+L YGPPGTGKTL+AKA+ATE  +NF +VKGPELLN YI
Sbjct: 1045 TIQLPLERPELFAKGMKKRSGILFYGPPGTGKTLLAKAIATEFSLNFFSVKGPELLNMYI 1104

Query: 276  GQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT 335
            G+SE N+R VF +AR A PCVVFFDELDS+AP+RG +  S GVMDR+VSQLLAE+DG++ 
Sbjct: 1105 GESEANVRRVFQRARDARPCVVFFDELDSVAPKRGNQGDSGGVMDRIVSQLLAELDGMNG 1164

Query: 336  SQD----VFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSD 391
             ++    VF++GATNR DLLD A+LRPGR DK LY+G+ +    Q  +L+A+ RKF L  
Sbjct: 1165 GEENSGGVFVIGATNRPDLLDTALLRPGRFDKMLYLGVSDTHRKQATILEALTRKFALHP 1224

Query: 392  DVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS 429
            DVSLD +    P   +GAD+Y++CS+A  +AI R  T+
Sbjct: 1225 DVSLDRVAEQLPLTYTGADLYALCSDAMLKAITRKATA 1262

Involved in peroxisome biosynthesis.

Penicillium chrysogenum (taxid: 5076)

>sp|P36966|PEX6_YARLI Peroxisomal biogenesis factor 6 OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=PEX6 PE=3 SV=2

 Score =  289 bits (739), Expect = 4e-77,   Method: Compositional matrix adjust.
 Identities = 160/364 (43%), Positives = 223/364 (61%), Gaps = 33/364 (9%)

Query: 95  IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDC-LGGDYGFDASL-------VEYLSSVT 146
           I + I+  F   I +   +EP+RR +  +      GGD   +A +       VE L+  +
Sbjct: 582 ISEAIRSRFQFEIEIGVPSEPQRRQIFSHLTKSGPGGDSIRNAPISLRSDVSVENLALQS 641

Query: 147 SGFERHDLTCLVR------LSVKNKMLKQGINKR-----------DLQKEDFQQIYDDLQ 189
           +G    DLT +V+      +   NK+ K                  L   DF     D +
Sbjct: 642 AGLTPPDLTAIVQTTRLRAIDRLNKLTKDSDTTLDDLLTLSHGTLQLTPSDFDDAIADAR 701

Query: 190 SRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGLK-RSGLLLYGPP 243
            +YSD + AP +PNV W+D+GG+  +K +IL T     +     + G+K RSG+L YGPP
Sbjct: 702 QKYSDSIGAPRIPNVGWDDVGGMEGVKKDILDTIETPLKYPHWFSDGVKKRSGILFYGPP 761

Query: 244 GTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELD 303
           GTGKTL+AKA+AT   +NF +VKGPELLN YIG+SE N+R VF KAR A PCVVFFDELD
Sbjct: 762 GTGKTLLAKAIATTFSLNFFSVKGPELLNMYIGESEANVRRVFQKARDAKPCVVFFDELD 821

Query: 304 SLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTS--QDVFILGATNRVDLLDPAILRPGRL 361
           S+AP+RG +  S GVMDR+VSQLLAE+DG+ T+  + VF++GATNR DLLD A+LRPGR 
Sbjct: 822 SVAPQRGNQGDSGGVMDRIVSQLLAELDGMSTAGGEGVFVVGATNRPDLLDEALLRPGRF 881

Query: 362 DKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTR 421
           DK LY+G+ +    Q  +++A+ RKF+L+ DVSL+++    P   +GAD Y++CS+A   
Sbjct: 882 DKMLYLGISDTHEKQQTIMEALTRKFRLAADVSLEAISKRCPFTFTGADFYALCSDAMLN 941

Query: 422 AIRR 425
           A+ R
Sbjct: 942 AMTR 945

Involved in peroxisome biosynthesis.

Yarrowia lipolytica (strain CLIB 122 / E 150) (taxid: 284591)

>sp|Q9C1E9|PEX6_COLOR Peroxisomal biogenesis factor 6 OS=Colletotrichum orbiculare (strain 104-T / ATCC 96160 / CBS 514.97 / LARS 414 / MAFF 240422) GN=PEX6 PE=3 SV=1

 Score =  285 bits (730), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 150/326 (46%), Positives = 206/326 (63%), Gaps = 37/326 (11%)

Query: 160  LSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEI 219
            ++V++  +  G   R + K DF    +  +  ++  + AP +PNV+W+D+GGL+ +K  +
Sbjct: 947  VTVRDLQVAGGAMARCVTKGDFDVAVEAARKNFAGAIGAPKIPNVTWDDVGGLNNVKDAV 1006

Query: 220  LSTFR-GVNR----TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK 273
              T +  + R      G+K RSG+L YGPPGTGKTL+AKA+ATE  +NF +VKGPELLN 
Sbjct: 1007 TETIQLPLERPELFAKGMKKRSGILFYGPPGTGKTLLAKAIATEYSLNFFSVKGPELLNM 1066

Query: 274  YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV 333
            YIG+SE N+R VF +AR A PCVVFFDELDS+AP+RG +  S GVMDR+VSQLLAE+DG+
Sbjct: 1067 YIGESEANVRRVFQRARDARPCVVFFDELDSVAPKRGNQGDSGGVMDRIVSQLLAELDGM 1126

Query: 334  H----TSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKL 389
                 TS  VF++GATNR DLLDPA+LRPGR DK LY+G+ +    QL +L+A+ RKF L
Sbjct: 1127 SGGDDTSGGVFVIGATNRPDLLDPALLRPGRFDKMLYLGVSDTHDKQLKILEALTRKFTL 1186

Query: 390  SDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA----------PQVKSAP-- 437
               VSL S+    P   +GAD Y++CS+A  +A+ R   S           P+ ++ P  
Sbjct: 1187 HPSVSLHSVAQQLPFTYTGADFYALCSDAMLKAVTRQAASVDAKIRELEAQPRSRTGPIS 1246

Query: 438  ---------------VIVTMDDFLGA 448
                           V+VT +DFL A
Sbjct: 1247 TAYFFDHHATPEDIAVMVTEEDFLAA 1272

Involved in peroxisome biosynthesis.

Glomerella lagenarium (taxid: 5462)

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	478
340709004	799	PREDICTED: peroxisome assembly factor 2-	0.736	0.440	0.504	8e-94
156555177	546	PREDICTED: peroxisome assembly factor 2-	0.705	0.617	0.502	5e-93
363731457	712	PREDICTED: peroxisome assembly factor 2,	0.730	0.490	0.498	9e-93
350419286	787	PREDICTED: peroxisome assembly factor 2-	0.736	0.447	0.502	3e-92
270003418	668	hypothetical protein TcasGA2_TC002647 [T	0.721	0.516	0.494	9e-91
260830569	1853	hypothetical protein BRAFLDRAFT_130765 [	0.573	0.147	0.570	4e-90
449496423	749	PREDICTED: peroxisome assembly factor 2	0.748	0.477	0.467	4e-89
449269617	686	Peroxisome assembly factor 2, partial [C	0.748	0.521	0.461	6e-89
432845555	1056	PREDICTED: peroxisome assembly factor 2-	0.744	0.337	0.489	2e-88
443703661	487	hypothetical protein CAPTEDRAFT_94242, p	0.654	0.642	0.514	3e-88

>gi|340709004|ref|XP_003393106.1| PREDICTED: peroxisome assembly factor 2-like [Bombus terrestris]

 Score =  350 bits (898), Expect = 8e-94,   Method: Compositional matrix adjust.
 Identities = 183/363 (50%), Positives = 250/363 (68%), Gaps = 11/363 (3%)

Query: 95  IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDL 154
           I  ++ ++F++TI+V  L + ER  LI + L     ++  + S +   S + S F   DL
Sbjct: 414 ISPELNRIFIETIHVEHLDQNERTNLISWLLMKRNLNHQVNLSKI---SGICSDFRYSDL 470

Query: 155 TCLVRLSVK--NKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGL 212
           + L+  +VK   K   + +    L +EDF + Y+ +QS Y+D   AP VP V WEDIGGL
Sbjct: 471 STLILNAVKFHCKDSTKNLKPLTLLQEDFDKAYEYMQSVYTDCKGAPRVPKVYWEDIGGL 530

Query: 213 SKLKAEILSTFR-GVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL 271
            KLK EI+   +  +  T G  +SGLLLYGPPGTGKTL+AKAVATE +++FL++KGPE+L
Sbjct: 531 MKLKHEIMRRIQLPLMNTLGFGQSGLLLYGPPGTGKTLLAKAVATEYQLHFLSIKGPEVL 590

Query: 272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMD 331
           N Y+GQSE+N+R VF +AR+AAPC++FFDELDSLAP RG+   S GVMDRVVSQLLAEMD
Sbjct: 591 NMYVGQSEKNVRQVFERARAAAPCIIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAEMD 650

Query: 332 GVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSD 391
           G+  S  +FI+GATNR DL+DPA+LRPGR DK LYVG++ DR SQ  VLKA+ RKFK  +
Sbjct: 651 GLDCSSSIFIIGATNRPDLIDPALLRPGRFDKLLYVGIHSDRDSQFNVLKALTRKFKFHE 710

Query: 392 D-VSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIIT----SAPQVKSAPVIVTMDDFL 446
           +   L+ L++  P   +GAD+YSICSNAW  A RR+++    ++ ++K   V V ++DFL
Sbjct: 711 NGEELEKLIYQLPEHTTGADLYSICSNAWLNAARRVLSNYHDNSNEIKLDYVGVELEDFL 770

Query: 447 GAC 449
            A 
Sbjct: 771 KAA 773

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156555177|ref|XP_001603458.1| PREDICTED: peroxisome assembly factor 2-like [Nasonia vitripennis]

 Score =  347 bits (891), Expect = 5e-93,   Method: Compositional matrix adjust.
 Identities = 181/360 (50%), Positives = 244/360 (67%), Gaps = 23/360 (6%)

Query: 103 FLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSV 162
           F++ IN+  L + ++  ++ + +      +  D   ++ ++ + S F   DL  LV  ++
Sbjct: 166 FVEKINIGHLEQNQKCEVLSWLIKSKNLKHQVD---LQKIAKMCSDFVLADLEALVLHAI 222

Query: 163 KNKMLKQGINKRDLQKEDFQQIYDD--------LQSRYSDQLDAPSVPNVSWEDIGGLSK 214
           KN+  +     +D  K DF ++ +D        +QS +SDQ+ AP VP V WEDIGGL+ 
Sbjct: 223 KNRFQRL----KDFSKNDFIELTNDDFLHACEYMQSTFSDQIGAPRVPKVHWEDIGGLAD 278

Query: 215 LKAEILSTFR-GVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK 273
           LK EI+      +    GLKRSGLLLYGPPGTGKTL+AKAVATEC+++FL+VKGPELLN 
Sbjct: 279 LKTEIMRRIEMPLLNVPGLKRSGLLLYGPPGTGKTLLAKAVATECQLHFLSVKGPELLNM 338

Query: 274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV 333
           Y+GQSE+N+R VF +AR+AAPC++FFDELDSLAP RGQ   S GVMDRVVSQLLAEMDG+
Sbjct: 339 YVGQSEKNVRQVFERARAAAPCIIFFDELDSLAPNRGQSGDSGGVMDRVVSQLLAEMDGL 398

Query: 334 HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DD 392
            +   VFI+ ATNR DL+DPA+LRPGR DK LYVG+Y D  SQ+GVLKA+ R F+L+   
Sbjct: 399 ESQGSVFIIAATNRPDLIDPALLRPGRFDKMLYVGIYSDTESQMGVLKALTRHFRLARGG 458

Query: 393 VSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAP------VIVTMDDFL 446
             L+ LV   P  ++GAD+YS+CSNAW RA+RR +TS    K         V+V ++DF+
Sbjct: 459 KELEELVKELPDNLTGADLYSVCSNAWLRAVRRALTSQGSEKEKEEVKGEDVVVGLEDFV 518

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|363731457|ref|XP_415006.3| PREDICTED: peroxisome assembly factor 2, partial [Gallus gallus]

 Score =  347 bits (889), Expect = 9e-93,   Method: Compositional matrix adjust.
 Identities = 188/377 (49%), Positives = 252/377 (66%), Gaps = 28/377 (7%)

Query: 99  IQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLV 158
           +Q  FL  + +  L+E +RR ++      L    G + SL + L+  T+GF   D   L+
Sbjct: 315 VQTAFLHEVKIEALSEDQRRAMLSMLTASL--PLGKEVSLAK-LARRTAGFVLGDFCALL 371

Query: 159 RLSVKNKMLK-------QGINK---RD-------LQKEDFQQIYDDLQSRYSDQLDAPSV 201
             S +    +        G+N+   RD       + +EDF    D L   +S  + AP +
Sbjct: 372 SHSSRAACTRIQALSFPGGLNEEVERDFCTAGFPVLEEDFNVALDQLHDAHSQAVGAPKI 431

Query: 202 PNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGLKRSGLLLYGPPGTGKTLIAKAVAT 256
           P+VSW+D+GGL ++K EIL T +         + GL RSGLLLYGPPGTGKTL+AKAVAT
Sbjct: 432 PSVSWQDVGGLHEVKKEILDTIQLPLEHPELLSLGLCRSGLLLYGPPGTGKTLLAKAVAT 491

Query: 257 ECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSS 316
            C M FL+VKGPEL+N Y+GQSEEN+RNVF +AR+AAPC++FFDELDSLAP RG+   S 
Sbjct: 492 TCTMTFLSVKGPELINMYVGQSEENVRNVFARARAAAPCIIFFDELDSLAPNRGRSGDSG 551

Query: 317 GVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQ 376
           GVMDRVVSQLLAE+DG+H+S++VF++GATNR DLLDPA+LRPGR DK +YVG+ EDR SQ
Sbjct: 552 GVMDRVVSQLLAELDGLHSSREVFVIGATNRPDLLDPALLRPGRFDKLVYVGVNEDRESQ 611

Query: 377 LGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR---IITSAPQV 433
           L VL AV RKFKL   V+L S++   P+Q++GADIYS+CS+A   A++R    I      
Sbjct: 612 LQVLSAVTRKFKLDPSVNLSSILEECPAQLTGADIYSLCSDAMMCAVKRKVEWIEEGLDT 671

Query: 434 KSAPVIVTMDDFLGACS 450
           +S+ +I+TM+DFL A +
Sbjct: 672 ESSALILTMEDFLQAAA 688

Source: Gallus gallus

Species: Gallus gallus

Genus: Gallus

Family: Phasianidae

Order: Galliformes

Class: Aves

Phylum: Chordata

Superkingdom: Eukaryota

>gi|350419286|ref|XP_003492131.1| PREDICTED: peroxisome assembly factor 2-like [Bombus impatiens]

 Score =  345 bits (885), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 183/364 (50%), Positives = 249/364 (68%), Gaps = 12/364 (3%)

Query: 95  IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDL 154
           I  ++ ++F++TI+V  L + ER  LI + L     ++  + S +   S + S F   DL
Sbjct: 401 IPAELNRIFIETIHVKHLDQNERTNLISWLLMKRNLNHQVNLSKI---SGMCSDFRYSDL 457

Query: 155 TCLVRLSVK--NKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGL 212
           + L+  +VK   K   + +    L +EDF + Y+ +QS Y+D   AP VP V WEDIGGL
Sbjct: 458 STLILNAVKFHCKDSTKNLKPLTLLQEDFDKAYEYMQSIYTDCKGAPRVPKVYWEDIGGL 517

Query: 213 SKLKAEILSTFR-GVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL 271
            KLK EI+   +  +  T G  +SGLLLYGPPGTGKTL+AKAVATE +++FL++KGPE+L
Sbjct: 518 MKLKHEIMRRIQLPLMNTLGFGQSGLLLYGPPGTGKTLLAKAVATEYQLHFLSIKGPEVL 577

Query: 272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMD 331
           N Y+GQSE+N+R VF +AR+AAPC++FFDELDSLAP RG+   S GVMDRVVSQLLAEMD
Sbjct: 578 NMYVGQSEKNVRQVFERARAAAPCIIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAEMD 637

Query: 332 GVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSD 391
           G+  S  +FI+GATNR DL+DPA+LRPGR DK LYVG++ DR SQ  VLKA+ RKFK  +
Sbjct: 638 GLDCSSSIFIIGATNRPDLIDPALLRPGRFDKLLYVGIHSDRDSQFNVLKALTRKFKFHE 697

Query: 392 D-VSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIIT----SAPQVK-SAPVIVTMDDF 445
           +   L+ L++  P   +GAD+YSICSNAW  A RR+++    ++  +K    V V ++DF
Sbjct: 698 NGEELEKLIYQLPEHTTGADLYSICSNAWLNAARRVLSNYHDNSNDIKLDEYVSVELEDF 757

Query: 446 LGAC 449
           L A 
Sbjct: 758 LKAA 761

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270003418|gb|EEZ99865.1| hypothetical protein TcasGA2_TC002647 [Tribolium castaneum]

 Score =  340 bits (872), Expect = 9e-91,   Method: Compositional matrix adjust.
 Identities = 179/362 (49%), Positives = 241/362 (66%), Gaps = 17/362 (4%)

Query: 98  QIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCL 157
           ++++ FLKT  +    + ER  ++ + L     D   D  + E +++ T GF   DL  L
Sbjct: 283 ELKRTFLKTFEIKAPNDQEREKILNWILK--SQDVTTDIDMSE-IANKTHGFLFEDLQTL 339

Query: 158 VRLSVKNKMLKQGINKRDLQKED-FQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLK 216
           V  ++ +   ++   +R +  +D F +  D +QS YS+ L AP VP V W D+GGL+++K
Sbjct: 340 VHYAMTDFTNEKKSAERCVVSQDYFFRALDLMQSNYSESLGAPRVPQVKWSDVGGLTEVK 399

Query: 217 AEILSTFR------GVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL 270
            EI+ T +       + +T+GLKRSG+LLYGPPGTGKTLIAKAVATEC + FL+VKGPEL
Sbjct: 400 EEIIKTIKLPLKHSELLKTTGLKRSGILLYGPPGTGKTLIAKAVATECGLCFLSVKGPEL 459

Query: 271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEM 330
           LN Y+GQSE+N+R VF KAR A+PC++FFDELDSLAP RG    S GVMDRVVSQLLAEM
Sbjct: 460 LNMYVGQSEQNVREVFEKARDASPCIIFFDELDSLAPNRGASGDSGGVMDRVVSQLLAEM 519

Query: 331 DGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS 390
           DG++ +  VFI+GATNR DL+DPA+LRPGR DK LYVG   DR S++ VL A+ RKF L 
Sbjct: 520 DGLNQTGTVFIIGATNRPDLIDPALLRPGRFDKLLYVGPCIDRDSKIAVLTALTRKFTLE 579

Query: 391 DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVK-------SAPVIVTMD 443
           +D  +   V   P   SGAD Y +CS+AW  A+RR + +  + K       ++ VIVT+D
Sbjct: 580 NDSLIAEAVDLCPENFSGADFYGVCSSAWMAAVRRFVKTLEEGKNDRNSATASDVIVTLD 639

Query: 444 DF 445
           DF
Sbjct: 640 DF 641

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|260830569|ref|XP_002610233.1| hypothetical protein BRAFLDRAFT_130765 [Branchiostoma floridae] gi|229295597|gb|EEN66243.1| hypothetical protein BRAFLDRAFT_130765 [Branchiostoma floridae]

 Score =  338 bits (867), Expect = 4e-90,   Method: Compositional matrix adjust.
 Identities = 161/282 (57%), Positives = 215/282 (76%), Gaps = 8/282 (2%)

Query: 175  DLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNR-----T 229
            ++++ DF++  D LQ+ +SD + AP +PNVSWED+GGL++++AEIL T +   +      
Sbjct: 1536 EVKQVDFEKALDHLQAAHSDAIGAPKIPNVSWEDVGGLAQVRAEILDTIQLPLQHPQLFA 1595

Query: 230  SGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKA 289
            +G++RSG+LLYGPPGTGKTL+AKAVATEC +NFL+VKGPEL+N Y+GQSEEN+R VF +A
Sbjct: 1596 AGMRRSGVLLYGPPGTGKTLLAKAVATECSLNFLSVKGPELINMYVGQSEENVREVFSRA 1655

Query: 290  RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD 349
            RSAAPCV+FFDELDSLAP RG+   S GVMDRVVSQLLAE+DG+H++ DVF++GATNR D
Sbjct: 1656 RSAAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLHSAADVFVIGATNRPD 1715

Query: 350  LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGA 409
            LLDPA+LRPGR DK L++G+ EDR SQL +L+A+ RKF+L+    L+++V   P  M+GA
Sbjct: 1716 LLDPALLRPGRFDKLLFLGVSEDRPSQLKILQALTRKFQLAASTQLENVVDQCPYNMTGA 1775

Query: 410  DIYSICSNAWTRAIRRII---TSAPQVKSAPVIVTMDDFLGA 448
            D Y++CS+    AIRR I    +   V    V V   DF+ A
Sbjct: 1776 DFYALCSDGMLNAIRRKIEQLEAGLPVDQTDVTVEEQDFITA 1817

Source: Branchiostoma floridae

Species: Branchiostoma floridae

Genus: Branchiostoma

Family: Branchiostomidae

Phylum: Chordata

Superkingdom: Eukaryota

>gi|449496423|ref|XP_004175181.1| PREDICTED: peroxisome assembly factor 2 [Taeniopygia guttata]

 Score =  335 bits (858), Expect = 4e-89,   Method: Compositional matrix adjust.
 Identities = 182/389 (46%), Positives = 252/389 (64%), Gaps = 31/389 (7%)

Query: 84  CKQQHKKKLVLIRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLS 143
           CK Q+      +   +Q  FL  + +   +E +RRL++      L    G + SL + L+
Sbjct: 346 CKPQN------VPTDVQTAFLHEVKIEAPSEEQRRLMLSMLTASL--PLGKEVSLSK-LA 396

Query: 144 SVTSGFERHDLTCLVRLSVKNKMLK----QGINKRDLQ----------KEDFQQIYDDLQ 189
             T+GF   D   L+  S +    +    +   +R  +          +EDF    D L 
Sbjct: 397 RRTAGFVLGDFCALLSHSSRAACTRIQALRWTERRSGEGFCTAGFPVLEEDFSGALDQLH 456

Query: 190 SRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGLKRSGLLLYGPPG 244
             +S  + AP +P+VSW+D+GGL ++K EIL T +         + GL RSGLLLYGPPG
Sbjct: 457 DAHSQAVGAPKIPSVSWQDVGGLQEVKKEILDTIQLPLEHPELLSLGLCRSGLLLYGPPG 516

Query: 245 TGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDS 304
           TGKTL+AKAVAT C M FL+VKGPEL+N Y+GQSEEN+R+VF +AR+AAPC++FFDELDS
Sbjct: 517 TGKTLLAKAVATTCTMTFLSVKGPELINMYVGQSEENVRSVFARARAAAPCIIFFDELDS 576

Query: 305 LAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKS 364
           LAP RG+   S GVMDRVVSQLLAE+DG+H++++VF++GATNR DLLD A+LRPGR DK 
Sbjct: 577 LAPSRGRSGDSGGVMDRVVSQLLAELDGLHSTREVFVIGATNRPDLLDTALLRPGRFDKL 636

Query: 365 LYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
           +YVG+ EDR SQL VL AV RKFKL   V+L +++   P+Q++GADIY++CS+A   A++
Sbjct: 637 VYVGISEDRESQLQVLSAVTRKFKLDPSVNLTTILEKCPAQLTGADIYALCSDAMMCAVK 696

Query: 425 R---IITSAPQVKSAPVIVTMDDFLGACS 450
           R    I      + + +I+TM+DFL A +
Sbjct: 697 RKVEWIEEGLDTEKSALILTMEDFLQAAA 725

Source: Taeniopygia guttata

Species: Taeniopygia guttata

Genus: Taeniopygia

Family: Estrildidae

Order: Passeriformes

Class: Aves

Phylum: Chordata

Superkingdom: Eukaryota

>gi|449269617|gb|EMC80375.1| Peroxisome assembly factor 2, partial [Columba livia]

 Score =  334 bits (857), Expect = 6e-89,   Method: Compositional matrix adjust.
 Identities = 181/392 (46%), Positives = 257/392 (65%), Gaps = 34/392 (8%)

Query: 84  CKQQHKKKLVLIRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLS 143
           CK Q       +   +Q  FL  +N+   +E +RR ++   +  +G   G + SL + L+
Sbjct: 280 CKPQD------VPTDVQTAFLHEVNIGAPSEEQRRSMLS--MLTVGLPLGREVSLSK-LA 330

Query: 144 SVTSGFERHDLTCLVRLS-------VKNKMLKQGINK---RD-------LQKEDFQQIYD 186
             T+GF   D   L+  S       ++      G+++   RD       + +EDF    D
Sbjct: 331 RKTAGFVLGDFCALLSHSSRAASTRIQTMSFPGGLSEEAERDFCTAGFPVLEEDFSFALD 390

Query: 187 DLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGLKRSGLLLYG 241
            L + +S  + AP +P+VSW+D+GGL ++K +I+ T +         + GL RSGLLLYG
Sbjct: 391 QLHNTHSQAVGAPKIPSVSWQDVGGLQEVKKDIVDTIQLPLEHPELLSLGLCRSGLLLYG 450

Query: 242 PPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDE 301
           PPGTGKTL+AKAVAT C M FL+VKGPEL+N Y+GQSEEN+RNVF KAR+A PC++FFDE
Sbjct: 451 PPGTGKTLLAKAVATTCTMTFLSVKGPELINMYVGQSEENVRNVFAKARAAVPCIIFFDE 510

Query: 302 LDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRL 361
           LDSLAP RG+   S G+MDRVVSQLLAE+DG+H++++VF++GATNR DLLDPA+LRPGR 
Sbjct: 511 LDSLAPSRGRSGDSGGIMDRVVSQLLAELDGLHSTREVFVIGATNRPDLLDPALLRPGRF 570

Query: 362 DKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTR 421
           DK +YVG+ EDR SQL VL A+ R+F L   V+L +++   P+Q++GADIY++CS+A   
Sbjct: 571 DKLVYVGINEDRESQLQVLGAITRRFNLDPSVNLTTILEKCPAQLTGADIYALCSDAMMC 630

Query: 422 AIRR---IITSAPQVKSAPVIVTMDDFLGACS 450
           A++R    I      +S+ +I+TM+DFL A +
Sbjct: 631 AVKRKVEWIEEGLDTESSVLILTMEDFLQAAA 662

Source: Columba livia

Species: Columba livia

Genus: Columba

Family: Columbidae

Order: Columbiformes

Class: Aves

Phylum: Chordata

Superkingdom: Eukaryota

>gi|432845555|ref|XP_004065826.1| PREDICTED: peroxisome assembly factor 2-like [Oryzias latipes]

 Score =  332 bits (852), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 191/390 (48%), Positives = 255/390 (65%), Gaps = 34/390 (8%)

Query: 99   IQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLV 158
            +   F+  + +  LTE +R  ++      L    G D SL E LS +T+GF   DL  LV
Sbjct: 659  VMAAFVHRVELESLTEEQRHAMLISLSRHL--HLGRDVSL-ERLSKLTAGFVLGDLNALV 715

Query: 159  RLSVKN--KMLKQGI--------NKRDL-------QKEDFQQIYDDLQSRYSDQLDAPSV 201
              + +   + L+Q           + DL       Q +DF    D LQ   S  + AP +
Sbjct: 716  VEAGRAACRRLRQSCFCVSSASRQQEDLCSSGVTVQNQDFTFALDVLQDAQSKSVGAPKI 775

Query: 202  PNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGLKRSGLLLYGPPGTGKTLIAKAVAT 256
            PNV WEDIGGL  +K EIL T +   +     + GL R+G+LLYGPPGTGKTL+AKAVAT
Sbjct: 776  PNVHWEDIGGLQLVKKEILDTVQLPLQHPELLSLGLNRTGVLLYGPPGTGKTLLAKAVAT 835

Query: 257  ECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSS 316
            EC + FL+VKGPEL+N Y+GQSEENIR VF +ARSAAPCVVFFDELDSLAPRRG+   S 
Sbjct: 836  ECSLTFLSVKGPELINMYVGQSEENIREVFHRARSAAPCVVFFDELDSLAPRRGRSGDSG 895

Query: 317  GVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQ 376
            GVMDRVVSQLLAE+D +++S  VF++GATNR DLLD ++LRPGR DK +YVG+ EDR SQ
Sbjct: 896  GVMDRVVSQLLAELDALNSSVGVFVIGATNRPDLLDQSLLRPGRFDKLIYVGINEDRASQ 955

Query: 377  LGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR---IITSAPQV 433
            L VL+A++RKF+L   V+L  +V   P+QM+GAD+Y++CS+A T AI+R   +I +    
Sbjct: 956  LQVLQAILRKFRLDPAVNLQEVVDRCPAQMTGADLYALCSDAMTAAIKRKISLIEAGLDS 1015

Query: 434  KSAPVIVTMDDFLGACSLATAPDKFSQSVA 463
            + +PV+++ DDF      ++A + F  SV+
Sbjct: 1016 EESPVLLSPDDF------SSALENFKPSVS 1039

Source: Oryzias latipes

Species: Oryzias latipes

Genus: Oryzias

Family: Adrianichthyidae

Order: Beloniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|443703661|gb|ELU01096.1| hypothetical protein CAPTEDRAFT_94242, partial [Capitella teleta]

 Score =  332 bits (851), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 174/338 (51%), Positives = 232/338 (68%), Gaps = 25/338 (7%)

Query: 139 VEYLSSVTSGFERHDLTCLVRLSVKN------KMLKQGINKRDLQK----------EDFQ 182
           V+YL+  T+GF   DL  LV L+  +      +++   +   D              DF 
Sbjct: 128 VKYLAQRTAGFVLGDLYALVSLAKNHGYERLSQLVPGSMTYEDEMNLIEAGVVFLCSDFI 187

Query: 183 QIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGLKRSGL 237
              D +Q+ +SD + AP +PNV W+D+GGL+ +K +IL T +   +      +GL+RSG+
Sbjct: 188 SAIDAMQAAHSDSIGAPKIPNVRWQDVGGLADVKRDILDTIQLPLQHPELLAAGLRRSGV 247

Query: 238 LLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVV 297
           L YGPPGTGKTL+AKAVATEC +NFL+VKGPELLN Y+GQSEENIR VF KARSA+PCVV
Sbjct: 248 LFYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYVGQSEENIREVFEKARSASPCVV 307

Query: 298 FFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILR 357
           FFDELDSLAP RG+   S GVMDRVVSQLLAE+DG++ S DVFI+GATNR DLLDPA+LR
Sbjct: 308 FFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGMNKSSDVFIIGATNRPDLLDPALLR 367

Query: 358 PGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSN 417
           PGR DK L++G+ +DR SQL ++KA+ RKF++ D   L+S+V   P  ++GAD Y++CS+
Sbjct: 368 PGRFDKLLFLGISDDRDSQLKIVKALTRKFRMQDSCELESVVSQCPLNLTGADFYALCSD 427

Query: 418 AWTRAIRRIITSAPQ--VKSAPVIVTMDDFLGACSLAT 453
           A   A++R I    +  ++   V V+ +DF GA  LAT
Sbjct: 428 AMLNAMKRKIAMLEEGTIEDQSVEVSQEDFSGA--LAT 463

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

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	478
UNIPROTKB|E2RDF7	980	PEX6 "Uncharacterized protein"	0.604	0.294	0.547	1.3e-86
UNIPROTKB|E1B8F6	980	PEX6 "Uncharacterized protein"	0.575	0.280	0.572	1.7e-86
MGI|MGI:2385054	981	Pex6 "peroxisomal biogenesis f	0.575	0.280	0.572	9.2e-86
RGD|621637	978	Pex6 "peroxisomal biogenesis f	0.575	0.281	0.572	2.4e-85
UNIPROTKB|P54777	978	Pex6 "Peroxisome assembly fact	0.575	0.281	0.572	2.4e-85
TAIR|locus:2007574	941	PEX6 "peroxin 6" [Arabidopsis	0.566	0.287	0.564	1.7e-84
UNIPROTKB|F1NYD5	680	PEX6 "Uncharacterized protein"	0.571	0.401	0.590	2.7e-84
UNIPROTKB|A5GFQ7	969	PEX6 "Peroxisomal biogenesis f	0.575	0.283	0.568	5e-83
FB|FBgn0033564	897	Pex6 "Peroxin 6" [Drosophila m	0.667	0.355	0.498	8.3e-83
UNIPROTKB|Q13608	980	PEX6 "Peroxisome assembly fact	0.575	0.280	0.575	1e-82

UNIPROTKB|E2RDF7 PEX6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 841 (301.1 bits), Expect = 1.3e-86, Sum P(2) = 1.3e-86
 Identities = 168/307 (54%), Positives = 224/307 (72%)

Query:   162 VKNKMLKQGINKRD----------LQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGG 211
             +KN  L  G+++ D          L  EDF Q  + LQ+ +S  + AP +P+VSW D+GG
Sbjct:   650 IKNSGLAGGLSEEDEGELCAAGFPLLAEDFGQALEQLQTAHSQAIGAPKIPSVSWHDVGG 709

Query:   212 LSKLKAEILSTFR-GVNRTS----GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK 266
             L ++K EIL T +  +        GL+RSGLLL+GPPGTGKTL+AKAVATEC + FL+VK
Sbjct:   710 LQEVKKEILETIQLPLEHPELLSLGLRRSGLLLHGPPGTGKTLLAKAVATECSLTFLSVK 769

Query:   267 GPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQL 326
             GPEL+N Y+GQSEEN+R VF +AR+AAPC++FFDELDSLAP RG+   S GVMDRVVSQL
Sbjct:   770 GPELINMYVGQSEENVREVFARARAAAPCIIFFDELDSLAPSRGRNGDSGGVMDRVVSQL 829

Query:   327 LAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK 386
             LAE+DG+H++QDVF++GATNR DLLDPA+LRPGR DK ++VG+ EDR SQL VL A+ RK
Sbjct:   830 LAELDGLHSTQDVFVIGATNRPDLLDPALLRPGRFDKLVFVGVSEDRASQLRVLSAITRK 889

Query:   387 FKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ---VKSAPVIVTMD 443
             FKL   VSL +++   P Q++GAD+YS+CS+A T A++R +    +     S+ +++TMD
Sbjct:   890 FKLEPSVSLVNVLDRCPPQLTGADLYSLCSDAMTTALKRRVRDLEEGLEPGSSTLLLTMD 949

Query:   444 DFLGACS 450
             D L A +
Sbjct:   950 DLLQAAA 956

GO:0050821 "protein stabilization" evidence=IEA

GO:0042623 "ATPase activity, coupled" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0016561 "protein import into peroxisome matrix, translocation" evidence=IEA

GO:0008022 "protein C-terminus binding" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005777 "peroxisome" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|E1B8F6 PEX6 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 840 (300.8 bits), Expect = 1.7e-86, Sum P(2) = 1.7e-86
 Identities = 162/283 (57%), Positives = 215/283 (75%)

Query:   176 LQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFR-GVNRTS---- 230
             L  EDF Q  + LQ+ +S  + AP +P+VSW D+GGL ++K EIL T +  +        
Sbjct:   674 LLAEDFGQALEQLQAAHSQAIGAPRIPSVSWHDVGGLQEVKKEILETIQLPLEHPELLSL 733

Query:   231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR 290
             GL+RSGLLL+GPPGTGKTL+AKAVATEC + FL+VKGPEL+N Y+GQSEEN+R VF +AR
Sbjct:   734 GLRRSGLLLHGPPGTGKTLLAKAVATECSLTFLSVKGPELINMYVGQSEENVREVFARAR 793

Query:   291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL 350
             +AAPC++FFDELDSLAP RG+   S GVMDRVVSQLLAE+DG+H++QDVF++GATNR DL
Sbjct:   794 AAAPCIIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLHSTQDVFVIGATNRPDL 853

Query:   351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGAD 410
             LDPA+LRPGR DK ++VG+ EDR SQL VL A+ RKF+L   VSL  ++ H P Q++GAD
Sbjct:   854 LDPALLRPGRFDKLVFVGVNEDRASQLRVLSAITRKFRLEPSVSLVDVLDHCPPQLTGAD 913

Query:   411 IYSICSNAWTRAIRRIITSAPQ---VKSAPVIVTMDDFLGACS 450
             +YS+CS+A T A++R +    +     S+ +++TM+D L A +
Sbjct:   914 LYSLCSDAMTAALKRRVRDLEEGLEPGSSALLLTMEDLLQAAA 956

GO:0050821 "protein stabilization" evidence=IEA

GO:0042623 "ATPase activity, coupled" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0016561 "protein import into peroxisome matrix, translocation" evidence=IEA

GO:0008022 "protein C-terminus binding" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005777 "peroxisome" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

MGI|MGI:2385054 Pex6 "peroxisomal biogenesis factor 6" [Mus musculus (taxid:10090)]

 Score = 832 (297.9 bits), Expect = 9.2e-86, Sum P(2) = 9.2e-86
 Identities = 162/283 (57%), Positives = 214/283 (75%)

Query:   176 LQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFR-GVNRTS---- 230
             L  EDF Q  D LQ+ +S  + AP +P+VSW D+GGL  +K EIL T +  +        
Sbjct:   675 LLAEDFGQALDQLQTAHSQAVGAPRIPSVSWHDVGGLQDVKKEILETIQLPLEHPELLSL 734

Query:   231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR 290
             GL+RSGLLL+GPPGTGKTL+AKAVATEC + FL+VKGPEL+N Y+GQSEEN+R VF +AR
Sbjct:   735 GLRRSGLLLHGPPGTGKTLLAKAVATECSLTFLSVKGPELINMYVGQSEENVREVFARAR 794

Query:   291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL 350
             +AAPC++FFDELDSLAP RG+   S GVMDRVVSQLLAE+DG+H++QDVF++GATNR DL
Sbjct:   795 AAAPCIIFFDELDSLAPSRGRSGDSGGVMDRVVSQLLAELDGLHSTQDVFVIGATNRPDL 854

Query:   351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGAD 410
             LDPA+LRPGR DK ++VG  EDR SQL VL A+ RKFKL   VSL +++   P Q++GAD
Sbjct:   855 LDPALLRPGRFDKLVFVGASEDRASQLRVLSAITRKFKLEASVSLANVLDCCPPQLTGAD 914

Query:   411 IYSICSNAWTRAIRRIITSAPQ---VKSAPVIVTMDDFLGACS 450
             +YS+CS+A   A++R +    +   ++S+ +++TM+D L A +
Sbjct:   915 LYSLCSDAMMTALKRRVRDLEEGLELRSSALLLTMEDLLQAAA 957

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005524 "ATP binding" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0005777 "peroxisome" evidence=ISO

GO:0005778 "peroxisomal membrane" evidence=ISO

GO:0005829 "cytosol" evidence=ISO

GO:0006200 "ATP catabolic process" evidence=ISO

GO:0006625 "protein targeting to peroxisome" evidence=ISO

GO:0007031 "peroxisome organization" evidence=ISO

GO:0008022 "protein C-terminus binding" evidence=ISO

GO:0016020 "membrane" evidence=IEA

GO:0016561 "protein import into peroxisome matrix, translocation" evidence=ISO

GO:0016887 "ATPase activity" evidence=ISO

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

GO:0032403 "protein complex binding" evidence=ISO

GO:0042623 "ATPase activity, coupled" evidence=ISO

GO:0050821 "protein stabilization" evidence=ISO

RGD|621637 Pex6 "peroxisomal biogenesis factor 6" [Rattus norvegicus (taxid:10116)]

 Score = 829 (296.9 bits), Expect = 2.4e-85, Sum P(2) = 2.4e-85
 Identities = 162/283 (57%), Positives = 213/283 (75%)

Query:   176 LQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFR-GVNRTS---- 230
             L  EDF Q  D LQ+ +S  + AP +P+VSW D+GGL  +K EIL T +  +        
Sbjct:   672 LLAEDFGQALDQLQTAHSQAVGAPKIPSVSWHDVGGLQDVKKEILETIQLPLEHPELLSL 731

Query:   231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR 290
             GL+RSGLLL+GPPGTGKTL+AKAVATEC + FL+VKGPEL+N Y+GQSEEN+R VF +AR
Sbjct:   732 GLRRSGLLLHGPPGTGKTLLAKAVATECSLTFLSVKGPELINMYVGQSEENVREVFARAR 791

Query:   291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL 350
             +AAPC++FFDELDSLAP RG+   S GVMDRVVSQLLAE+DG+H++QDVF++GATNR DL
Sbjct:   792 AAAPCIIFFDELDSLAPSRGRSGDSGGVMDRVVSQLLAELDGLHSTQDVFVIGATNRPDL 851

Query:   351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGAD 410
             LDPA+LRPGR DK ++VG  EDR SQL VL A+ RKFKL   VSL +++   P Q++GAD
Sbjct:   852 LDPALLRPGRFDKLVFVGASEDRASQLRVLSAITRKFKLEASVSLMNVLDCCPPQLTGAD 911

Query:   411 IYSICSNAWTRAIRRIITSAPQ---VKSAPVIVTMDDFLGACS 450
             +YS+CS+A   A++R +    +    +S+ +++TM+D L A +
Sbjct:   912 LYSLCSDAMMTALKRRVRDLEEGLEPRSSALLLTMEDLLQAAA 954

GO:0005524 "ATP binding" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0005777 "peroxisome" evidence=IEA;ISO

GO:0005778 "peroxisomal membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IEA;ISO

GO:0006200 "ATP catabolic process" evidence=ISO

GO:0006625 "protein targeting to peroxisome" evidence=ISO

GO:0007031 "peroxisome organization" evidence=ISO;IMP

GO:0008022 "protein C-terminus binding" evidence=IEA;ISO

GO:0016561 "protein import into peroxisome matrix, translocation" evidence=IEA;ISO

GO:0016887 "ATPase activity" evidence=ISO

GO:0032403 "protein complex binding" evidence=IEA;ISO

GO:0042623 "ATPase activity, coupled" evidence=IEA;ISO

GO:0050821 "protein stabilization" evidence=IEA;ISO

UNIPROTKB|P54777 Pex6 "Peroxisome assembly factor 2" [Rattus norvegicus (taxid:10116)]

 Score = 829 (296.9 bits), Expect = 2.4e-85, Sum P(2) = 2.4e-85
 Identities = 162/283 (57%), Positives = 213/283 (75%)

Query:   176 LQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFR-GVNRTS---- 230
             L  EDF Q  D LQ+ +S  + AP +P+VSW D+GGL  +K EIL T +  +        
Sbjct:   672 LLAEDFGQALDQLQTAHSQAVGAPKIPSVSWHDVGGLQDVKKEILETIQLPLEHPELLSL 731

Query:   231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR 290
             GL+RSGLLL+GPPGTGKTL+AKAVATEC + FL+VKGPEL+N Y+GQSEEN+R VF +AR
Sbjct:   732 GLRRSGLLLHGPPGTGKTLLAKAVATECSLTFLSVKGPELINMYVGQSEENVREVFARAR 791

Query:   291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL 350
             +AAPC++FFDELDSLAP RG+   S GVMDRVVSQLLAE+DG+H++QDVF++GATNR DL
Sbjct:   792 AAAPCIIFFDELDSLAPSRGRSGDSGGVMDRVVSQLLAELDGLHSTQDVFVIGATNRPDL 851

Query:   351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGAD 410
             LDPA+LRPGR DK ++VG  EDR SQL VL A+ RKFKL   VSL +++   P Q++GAD
Sbjct:   852 LDPALLRPGRFDKLVFVGASEDRASQLRVLSAITRKFKLEASVSLMNVLDCCPPQLTGAD 911

Query:   411 IYSICSNAWTRAIRRIITSAPQ---VKSAPVIVTMDDFLGACS 450
             +YS+CS+A   A++R +    +    +S+ +++TM+D L A +
Sbjct:   912 LYSLCSDAMMTALKRRVRDLEEGLEPRSSALLLTMEDLLQAAA 954

GO:0005524 "ATP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0008022 "protein C-terminus binding" evidence=IEA

GO:0016561 "protein import into peroxisome matrix, translocation" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0042623 "ATPase activity, coupled" evidence=IEA

GO:0050821 "protein stabilization" evidence=IEA

TAIR|locus:2007574 PEX6 "peroxin 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 780 (279.6 bits), Expect = 1.7e-84, Sum P(3) = 1.7e-84
 Identities = 161/285 (56%), Positives = 211/285 (74%)

Query:   178 KEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRG--VNR---TSGL 232
             KEDF +  D  + R +  L AP VPNV W+D+GGL  +K  IL T +   +++   +SGL
Sbjct:   629 KEDFTKALDRSKKRNASALGAPKVPNVKWDDVGGLEDVKTSILDTVQLPLLHKDLFSSGL 688

Query:   233 -KRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARS 291
              KRSG+LLYGPPGTGKTL+AKAVATEC +NFL+VKGPEL+N YIG+SE+N+R++F KARS
Sbjct:   689 RKRSGVLLYGPPGTGKTLLAKAVATECSLNFLSVKGPELINMYIGESEKNVRDIFEKARS 748

Query:   292 AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-TSQDVFILGATNRVDL 350
             A PCV+FFDELDSLAP RG    S GVMDRVVSQ+LAE+DG+  +SQD+FI+GA+NR DL
Sbjct:   749 ARPCVIFFDELDSLAPARGASGDSGGVMDRVVSQMLAEIDGLSDSSQDLFIIGASNRPDL 808

Query:   351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGAD 410
             +DPA+LRPGR DK LYVG+  D   +  VLKA+ RKFKLS+DVSL S+    PS  +GAD
Sbjct:   809 IDPALLRPGRFDKLLYVGVNADASYRERVLKALTRKFKLSEDVSLYSVAKKCPSTFTGAD 868

Query:   411 IYSICSNAWTRAIRRIITSA-----PQVKSAP--VIVTMDDFLGA 448
             +Y++C++AW +A +R ++ +     P  +  P  V+V   DF+ A
Sbjct:   869 MYALCADAWFQAAKRKVSKSDSGDMPTEEDDPDSVVVEYVDFIKA 913

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0016558 "protein import into peroxisome matrix" evidence=IMP

GO:0006635 "fatty acid beta-oxidation" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|F1NYD5 PEX6 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 844 (302.2 bits), Expect = 2.7e-84, P = 2.7e-84
 Identities = 166/281 (59%), Positives = 213/281 (75%)

Query:   178 KEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFR-GVNRTS----GL 232
             +EDF    D L   +S  + AP +P+VSW+D+GGL ++K EIL T +  +        GL
Sbjct:   376 EEDFNVALDQLHDAHSQAVGAPKIPSVSWQDVGGLHEVKKEILDTIQLPLEHPELLSLGL 435

Query:   233 KRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSA 292
              RSGLLLYGPPGTGKTL+AKAVAT C M FL+VKGPEL+N Y+GQSEEN+RNVF +AR+A
Sbjct:   436 CRSGLLLYGPPGTGKTLLAKAVATTCTMTFLSVKGPELINMYVGQSEENVRNVFARARAA 495

Query:   293 APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD 352
             APC++FFDELDSLAP RG+   S GVMDRVVSQLLAE+DG+H+S++VF++GATNR DLLD
Sbjct:   496 APCIIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLHSSREVFVIGATNRPDLLD 555

Query:   353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIY 412
             PA+LRPGR DK +YVG+ EDR SQL VL AV RKFKL   V+L S++   P+Q++GADIY
Sbjct:   556 PALLRPGRFDKLVYVGVNEDRESQLQVLSAVTRKFKLDPSVNLSSILEECPAQLTGADIY 615

Query:   413 SICSNAWTRAIRRI---ITSAPQVKSAPVIVTMDDFLGACS 450
             S+CS+A   A++R    I      +S+ +I+TM+DFL A +
Sbjct:   616 SLCSDAMMCAVKRKVEWIEEGLDTESSALILTMEDFLQAAA 656

GO:0005524 "ATP binding" evidence=IEA

GO:0005777 "peroxisome" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0008022 "protein C-terminus binding" evidence=IEA

GO:0016561 "protein import into peroxisome matrix, translocation" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0042623 "ATPase activity, coupled" evidence=IEA

GO:0050821 "protein stabilization" evidence=IEA

UNIPROTKB|A5GFQ7 PEX6 "Peroxisomal biogenesis factor 6" [Sus scrofa (taxid:9823)]

 Score = 832 (297.9 bits), Expect = 5.0e-83, P = 5.0e-83
 Identities = 161/283 (56%), Positives = 214/283 (75%)

Query:   176 LQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFR-GVNRTS---- 230
             L  ED  Q  + LQS +S  + AP +P+VSW D+GGL ++K EIL T +  +        
Sbjct:   663 LLAEDLGQALEQLQSAHSQAVGAPKIPSVSWHDVGGLQEVKKEILETIQLPLEHPELLSL 722

Query:   231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR 290
             GL+RSGLLL+GPPGTGKTL+AKAVATEC + FL+VKGPEL+N Y+GQSEEN+R VF +AR
Sbjct:   723 GLRRSGLLLHGPPGTGKTLLAKAVATECSLTFLSVKGPELINMYVGQSEENVREVFARAR 782

Query:   291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL 350
             +AAPC++FFDELDSLAP RG+   S GVMDRVVSQLLAE+DG+H++QDVF++GATNR DL
Sbjct:   783 AAAPCIIFFDELDSLAPSRGRSGDSGGVMDRVVSQLLAELDGLHSTQDVFVIGATNRPDL 842

Query:   351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGAD 410
             LDPA+LRPGR DK ++VG  EDR SQL VL A+ RKF+L   VSL +++ H P Q++GAD
Sbjct:   843 LDPALLRPGRFDKLVFVGASEDRASQLRVLSAITRKFRLEPSVSLVAVLDHCPPQLTGAD 902

Query:   411 IYSICSNAWTRAIRRIITSAP---QVKSAPVIVTMDDFLGACS 450
             +YS+C++A T A++R +       +  S+ +++TM+D L A +
Sbjct:   903 LYSLCADAMTAALKRRVRDLEDGLEPGSSALLLTMEDLLQAAA 945

GO:0032403 "protein complex binding" evidence=ISS

GO:0006625 "protein targeting to peroxisome" evidence=ISS

GO:0005524 "ATP binding" evidence=ISS

GO:0050821 "protein stabilization" evidence=ISS

GO:0042623 "ATPase activity, coupled" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

GO:0016561 "protein import into peroxisome matrix, translocation" evidence=ISS

GO:0008022 "protein C-terminus binding" evidence=ISS

GO:0007031 "peroxisome organization" evidence=ISS

GO:0005829 "cytosol" evidence=ISS

GO:0005777 "peroxisome" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

FB|FBgn0033564 Pex6 "Peroxin 6" [Drosophila melanogaster (taxid:7227)]

 Score = 768 (275.4 bits), Expect = 8.3e-83, Sum P(3) = 8.3e-83
 Identities = 165/331 (49%), Positives = 219/331 (66%)

Query:   105 KTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKN 164
             K I  LPL   E +   Q+ +  +   +    ++++ +++ + GF   DL  L   +V+ 
Sbjct:   518 KAIEQLPLFSRENQS--QF-MPRISPSWRETLNVLQDVAAKSQGFLLGDLQLLYDNAVRM 574

Query:   165 KMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTF- 223
             K ++  + +  L    F +   D+QS ++D L AP VP V W DIGGL+KLK EI S+  
Sbjct:   575 K-IRNRLGRTTLDMSHFAKNLTDMQSSFADSLGAPKVPKVYWSDIGGLAKLKDEIQSSIG 633

Query:   224 ---RGVNRTS-GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSE 279
                + V+     L+RSG+LLYGPPGTGKTL+AKAVATEC ++FL+V+GPELLN Y+GQSE
Sbjct:   634 LPLKHVHLMGKNLRRSGILLYGPPGTGKTLVAKAVATECNLSFLSVQGPELLNMYVGQSE 693

Query:   280 ENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---TS 336
             +N+R VF +ARSAAPCV+F DELDSLAP RG    S GVMDRVVSQLLAEMDG+    TS
Sbjct:   694 QNVREVFSRARSAAPCVLFLDELDSLAPNRGVAGDSGGVMDRVVSQLLAEMDGMSDGDTS 753

Query:   337 QDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLD 396
             + +FIL ATNR DL+DPA+LRPGR DK  YVG       +  VL+A  ++F L   V ++
Sbjct:   754 KPIFILAATNRPDLIDPALLRPGRFDKLFYVGPCSTAEDKAAVLRAQTQRFALDAGVDME 813

Query:   397 SLVHHFPSQMSGADIYSICSNAWTRAIRRII 427
              +     S+MSGAD+YSICSNAW  A+RR I
Sbjct:   814 QIAERLKSEMSGADLYSICSNAWLSAVRRTI 844

GO:0007031 "peroxisome organization" evidence=ISS;IMP

GO:0005777 "peroxisome" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|Q13608 PEX6 "Peroxisome assembly factor 2" [Homo sapiens (taxid:9606)]

 Score = 829 (296.9 bits), Expect = 1.0e-82, P = 1.0e-82
 Identities = 163/283 (57%), Positives = 215/283 (75%)

Query:   176 LQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFR-GVNRTS---- 230
             L  EDF Q  + LQ+ +S  + AP +P+VSW D+GGL ++K EIL T +  +        
Sbjct:   674 LLAEDFGQALEQLQTAHSQAVGAPKIPSVSWHDVGGLQEVKKEILETIQLPLEHPELLSL 733

Query:   231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR 290
             GL+RSGLLL+GPPGTGKTL+AKAVATEC + FL+VKGPEL+N Y+GQSEEN+R VF +AR
Sbjct:   734 GLRRSGLLLHGPPGTGKTLLAKAVATECSLTFLSVKGPELINMYVGQSEENVREVFARAR 793

Query:   291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL 350
             +AAPC++FFDELDSLAP RG+   S GVMDRVVSQLLAE+DG+H++QDVF++GATNR DL
Sbjct:   794 AAAPCIIFFDELDSLAPSRGRSGDSGGVMDRVVSQLLAELDGLHSTQDVFVIGATNRPDL 853

Query:   351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGAD 410
             LDPA+LRPGR DK ++VG  EDR SQL VL A+ RKFKL   VSL +++   P Q++GAD
Sbjct:   854 LDPALLRPGRFDKLVFVGANEDRASQLRVLSAITRKFKLEPSVSLVNVLDCCPPQLTGAD 913

Query:   411 IYSICSNAWTRAI-RRI--ITSAPQVKSAPVIVTMDDFLGACS 450
             +YS+CS+A T A+ RR+  +    +  S+ +++TM+D L A +
Sbjct:   914 LYSLCSDAMTAALKRRVHDLEEGLEPGSSALMLTMEDLLQAAA 956

GO:0005778 "peroxisomal membrane" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

GO:0007031 "peroxisome organization" evidence=IMP

GO:0016887 "ATPase activity" evidence=IMP

GO:0008022 "protein C-terminus binding" evidence=IPI

GO:0005777 "peroxisome" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006625 "protein targeting to peroxisome" evidence=IMP

GO:0032403 "protein complex binding" evidence=IDA

GO:0016561 "protein import into peroxisome matrix, translocation" evidence=IMP

GO:0050821 "protein stabilization" evidence=IMP

GO:0005524 "ATP binding" evidence=IMP

GO:0042623 "ATPase activity, coupled" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0006200 "ATP catabolic process" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q99LC9	PEX6_MOUSE	No assigned EC number	0.5724	0.5753	0.2803	yes	N/A
P54777	PEX6_RAT	No assigned EC number	0.5724	0.5753	0.2811	yes	N/A
Q74Z13	PEX6_ASHGO	No assigned EC number	0.5190	0.5878	0.2752	yes	N/A
P33760	PEX6_YEAST	No assigned EC number	0.5387	0.5251	0.2436	yes	N/A
Q9HG03	PEX6_PENCH	No assigned EC number	0.5071	0.5606	0.1836	yes	N/A
O13764	PEX6_SCHPO	No assigned EC number	0.5213	0.4728	0.2383	yes	N/A
Q8RY16	PEX6_ARATH	No assigned EC number	0.5649	0.5669	0.2879	yes	N/A
Q6BS73	PEX6_DEBHA	No assigned EC number	0.5232	0.5167	0.2061	yes	N/A
P33289	PEX6_PICPA	No assigned EC number	0.5214	0.5188	0.2128	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	478
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	4e-77
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	4e-73
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	9e-65
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	1e-64
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	1e-58
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	2e-58
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	2e-54
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	2e-53
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	7e-51
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	3e-45
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	1e-43
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	1e-41
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	2e-37
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	5e-36
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	5e-36
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	7e-36
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	2e-25
CHL00195	489	CHL00195, ycf46, Ycf46; Provisional	2e-17
smart00382	148	smart00382, AAA, ATPases associated with a variety	2e-15
TIGR03922	557	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPas	4e-09
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	5e-05
TIGR02881	261	TIGR02881, spore_V_K, stage V sporulation protein	8e-05
COG0714	329	COG0714, COG0714, MoxR-like ATPases [General funct	1e-04
PRK08116	268	PRK08116, PRK08116, hypothetical protein; Validate	1e-04
COG0466	782	COG0466, Lon, ATP-dependent Lon protease, bacteria	2e-04
TIGR00382	413	TIGR00382, clpX, endopeptidase Clp ATP-binding reg	3e-04
PRK00440	319	PRK00440, rfc, replication factor C small subunit;	4e-04
PRK00080	328	PRK00080, ruvB, Holliday junction DNA helicase Ruv	0.001
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	0.001
COG2255	332	COG2255, RuvB, Holliday junction resolvasome, heli	0.002
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	0.002
pfam13481	154	pfam13481, AAA_25, AAA domain	0.003
pfam01078	207	pfam01078, Mg_chelatase, Magnesium chelatase, subu	0.003
TIGR00763	775	TIGR00763, lon, ATP-dependent protease La	0.004
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	0.004

>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score =  255 bits (652), Expect = 4e-77
 Identities = 130/343 (37%), Positives = 195/343 (56%), Gaps = 37/343 (10%)

Query: 138 LVEYLSSVTSGFERHDLTCLVR---LSVKNKMLKQGINKRDLQKEDF-QQIYDDLQSRYS 193
            ++ L+ VT GF   DL  L +   ++   + +++G  K + + E+   ++  +L+    
Sbjct: 369 DLDKLAEVTHGFVGADLAALAKEAAMAALRRFIREG--KINFEAEEIPAEVLKELKVTMK 426

Query: 194 DQLDA-----PS--------VPNVSWEDIGGLSKLKAEILST------FRGVNRTSGLKR 234
           D ++A     PS        VPNV W DIGGL ++K E+            +    G++ 
Sbjct: 427 DFMEALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRP 486

Query: 235 -SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAA 293
             G+LL+GPPGTGKTL+AKAVATE   NF+AV+GPE+L+K++G+SE+ IR +F KAR AA
Sbjct: 487 PKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAA 546

Query: 294 PCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDP 353
           P ++FFDE+D++AP RG     + V DR+V+QLL EMDG+    +V ++ ATNR D+LDP
Sbjct: 547 PAIIFFDEIDAIAPARGA-RFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDP 605

Query: 354 AILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYS 413
           A+LRPGR D+ + V    D  ++  + K   R   L++DV L+ L        +GADI +
Sbjct: 606 ALLRPGRFDRLILVPP-PDEEARKEIFKIHTRSMPLAEDVDLEELAEM-TEGYTGADIEA 663

Query: 414 ICSNAWTRAIRRIITSAPQVK--------SAPVIVTMDDFLGA 448
           +C  A   A+R  I S  + K           + V M  FL A
Sbjct: 664 VCREAAMAALRESIGSPAKEKLEVGEEEFLKDLKVEMRHFLEA 706

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. Length = 733

>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

 Score =  238 bits (610), Expect = 4e-73
 Identities = 120/321 (37%), Positives = 170/321 (52%), Gaps = 28/321 (8%)

Query: 140 EYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAP 199
           + L++ T G    DL  L + +   ++ +      +          + L+     +    
Sbjct: 175 KTLAARTVGKSGADLGALAKEAALRELRRAIDLVGEYIGVTEDDFEEALKKVLPSRGVLF 234

Query: 200 SVPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKTL 249
              +V+ +DIGGL + K E+             FR +         G+LLYGPPGTGKTL
Sbjct: 235 EDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRP---PKGVLLYGPPGTGKTL 291

Query: 250 IAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR 309
           +AKAVA E R  F++VKG ELL+K++G+SE+NIR +F KAR  AP ++F DE+DSLA  R
Sbjct: 292 LAKAVALESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGR 351

Query: 310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
           G      G   RVV QLL E+DG+  ++ V ++ ATNR D LDPA+LRPGR D+ +YV L
Sbjct: 352 G--PSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPL 409

Query: 370 YEDRISQLGVLKAVVRKFK--LSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII 427
             D   +L + K  +R  K  L++DV L+ L        SGADI ++   A   A+R   
Sbjct: 410 P-DLEERLEIFKIHLRDKKPPLAEDVDLEELA-EITEGYSGADIAALVREAALEALREAR 467

Query: 428 TSAPQVKSAPVIVTMDDFLGA 448
                       VT+DDFL A
Sbjct: 468 ---------RREVTLDDFLDA 479

Length = 494

>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

 Score =  214 bits (547), Expect = 9e-65
 Identities = 103/262 (39%), Positives = 141/262 (53%), Gaps = 34/262 (12%)

Query: 202 PNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKR-SGLLLYGPPGTGKTLI 250
           P+V++EDIGGL +   EI             F  +    G+    G+LLYGPPGTGKTL+
Sbjct: 146 PDVTYEDIGGLDEQIQEIREVVELPLKNPELFEEL----GIDPPKGVLLYGPPGTGKTLL 201

Query: 251 AKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRG 310
           AKAVA +    F+ V G EL+ KYIG+    +R +F  AR  AP ++F DE+D++  +R 
Sbjct: 202 AKAVANQTDATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRF 261

Query: 311 QEDQSSGVMDRVVS----QLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLY 366
               S    DR V     +LL ++DG     +V ++ ATNR D+LDPA+LRPGR D+ + 
Sbjct: 262 DSGTSG---DREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIE 318

Query: 367 VGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRI 426
             L  D   +  +LK   RK  L+DDV L+ L        SGAD+ +IC+ A   AIR  
Sbjct: 319 FPL-PDEEGRAEILKIHTRKMNLADDVDLELLA-RLTEGFSGADLKAICTEAGMFAIRE- 375

Query: 427 ITSAPQVKSAPVIVTMDDFLGA 448
                        VTM+DFL A
Sbjct: 376 ---------RRDEVTMEDFLKA 388

Length = 406

>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase; Provisional

 Score =  213 bits (545), Expect = 1e-64
 Identities = 115/262 (43%), Positives = 151/262 (57%), Gaps = 34/262 (12%)

Query: 202 PNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKR-SGLLLYGPPGTGKTLI 250
           PNV++EDIGGL +   E+             F  V    G++   G+LLYGPPGTGKTL+
Sbjct: 126 PNVTYEDIGGLEEQIREVREAVELPLKKPELFEEV----GIEPPKGVLLYGPPGTGKTLL 181

Query: 251 AKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRG 310
           AKAVA E    F+ V G EL+ K+IG+    +R +F  AR  AP ++F DE+D++A +R 
Sbjct: 182 AKAVAHETNATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKR- 240

Query: 311 QEDQSSGVMDRVVS----QLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLY 366
            +  +SG  DR V     QLLAEMDG     +V I+ ATNR+D+LDPAILRPGR D+ + 
Sbjct: 241 TDSGTSG--DREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIE 298

Query: 367 VGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRI 426
           V L  D   +L +LK   RK  L+DDV L+ L        SGAD+ +IC+ A   AIR  
Sbjct: 299 VPL-PDEEGRLEILKIHTRKMNLADDVDLEELAELTEG-ASGADLKAICTEAGMFAIRDD 356

Query: 427 ITSAPQVKSAPVIVTMDDFLGA 448
            T           VTM+DFL A
Sbjct: 357 RTE----------VTMEDFLKA 368

Length = 389

>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score =  205 bits (522), Expect = 1e-58
 Identities = 107/267 (40%), Positives = 155/267 (58%), Gaps = 26/267 (9%)

Query: 201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKR-------SGLLLYGPPGTGKTLIAKA 253
           VP V++EDIGGL + K +I        +   L          G+LLYGPPGTGKTL+AKA
Sbjct: 172 VPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKA 231

Query: 254 VATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED 313
           VA E    F+++ GPE+++KY G+SEE +R +F +A   AP ++F DE+D++AP+R  E+
Sbjct: 232 VANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKR--EE 289

Query: 314 QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDR 373
            +  V  RVV+QLL  MDG+     V ++GATNR D LDPA+ RPGR D+ + + +  D+
Sbjct: 290 VTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRV-PDK 348

Query: 374 ISQLGVLKAVVRKFKLSDDVSLDSL---VHHFPSQMSGADIYSICSNAWTRAIRRIITSA 430
            ++  +LK   R   L++DV LD L    H F     GAD+ ++   A   A+RR I   
Sbjct: 349 RARKEILKVHTRNMPLAEDVDLDKLAEVTHGF----VGADLAALAKEAAMAALRRFIREG 404

Query: 431 ---PQVKSAP------VIVTMDDFLGA 448
               + +  P      + VTM DF+ A
Sbjct: 405 KINFEAEEIPAEVLKELKVTMKDFMEA 431

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. Length = 733

>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family

 Score =  196 bits (499), Expect = 2e-58
 Identities = 114/302 (37%), Positives = 161/302 (53%), Gaps = 38/302 (12%)

Query: 169 QGINKRDLQ-------KEDFQQIYDDLQSRYSDQLDAPSV---PNVSWEDIGGLSKLKAE 218
             I+++ L+        +    I D L +     +    V   PNVS+EDIGGL +   E
Sbjct: 74  AFIDRKSLKPGARVALNQQTLTIVDVLPTSKDPLVKGMEVEERPNVSYEDIGGLEEQIRE 133

Query: 219 ILST----------FRGVNRTSGLKR-SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG 267
           I             F  V    G++   G+LLYGPPGTGKTL+AKAVA E    F+ V G
Sbjct: 134 IREAVELPLKHPELFEEV----GIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVG 189

Query: 268 PELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSG-VMDRVVSQL 326
            EL+ KYIG+    +R +F  A+  AP ++F DE+D++A +R     S    + R + QL
Sbjct: 190 SELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQL 249

Query: 327 LAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK 386
           LAE+DG     +V ++ ATNR D+LDPA+LRPGR D+ + V L +    +L +LK   RK
Sbjct: 250 LAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFE-GRLEILKIHTRK 308

Query: 387 FKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFL 446
            KL++DV L+++        SGAD+ +IC+ A   AIR               VTMDDF+
Sbjct: 309 MKLAEDVDLEAIA-KMTEGASGADLKAICTEAGMFAIREERD----------YVTMDDFI 357

Query: 447 GA 448
            A
Sbjct: 358 KA 359

Many proteins may score above the trusted cutoff because an internal. Length = 364

>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score =  177 bits (452), Expect = 2e-54
 Identities = 68/134 (50%), Positives = 90/134 (67%), Gaps = 4/134 (2%)

Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCV 296
           LLLYGPPGTGKT +AKAVA E    F+ + G EL++KY+G+SE+ +R +F  A+  APCV
Sbjct: 1   LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCV 60

Query: 297 VFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD-VFILGATNRVDLLDPAI 355
           +F DE+D+LA  RG          RVV+QLL E+DG  +S   V ++ ATNR D LDPA+
Sbjct: 61  IFIDEIDALAGSRG--SGGDSESRRVVNQLLTELDGFTSSLSKVIVIAATNRPDKLDPAL 118

Query: 356 LRPGRLDKSLYVGL 369
           LR GR D+ +   L
Sbjct: 119 LR-GRFDRIIEFPL 131

AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes. Length = 131

>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase

 Score =  187 bits (476), Expect = 2e-53
 Identities = 91/183 (49%), Positives = 115/183 (62%), Gaps = 22/183 (12%)

Query: 201 VPNVSWEDIGGLS------KLKAEILSTFRGVNRTSGLKR-SGLLLYGPPGTGKTLIAKA 253
           VP+V++ DIGGL       +   E+      + R  GLK   G+LLYGPPG GKTLIAKA
Sbjct: 176 VPDVTYADIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAKA 235

Query: 254 VATEC----------RMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAA----PCVVFF 299
           VA             +  FL +KGPELLNKY+G++E  IR +F +AR  A    P +VFF
Sbjct: 236 VANSLAARIGAEGGGKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKASEGRPVIVFF 295

Query: 300 DELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPG 359
           DE+DSL   RG    SS V   VV QLLAE+DGV +  +V ++GA+NR D++DPAILRPG
Sbjct: 296 DEMDSLFRTRGS-GVSSDVETTVVPQLLAEIDGVESLDNVIVIGASNREDMIDPAILRPG 354

Query: 360 RLD 362
           RLD
Sbjct: 355 RLD 357

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 [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 512

>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like protein; Provisional

 Score =  177 bits (450), Expect = 7e-51
 Identities = 94/234 (40%), Positives = 140/234 (59%), Gaps = 14/234 (5%)

Query: 202 PNVSWEDIGGLSKLKAEILS------TFRGVNRTSGLKR-SGLLLYGPPGTGKTLIAKAV 254
           P+V++ DIGGL   K EI        T   +    G+    G+LLYGPPGTGKT++AKAV
Sbjct: 140 PDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAV 199

Query: 255 ATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ 314
           A      F+ V G E + KY+G+    +R+VF  AR  AP ++F DE+DS+A +R   D 
Sbjct: 200 AHHTTATFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKR--FDA 257

Query: 315 SSGV---MDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
            +G    + R++ +LL +MDG   + +V ++ ATNR D LDPA+LRPGRLD+ +   L +
Sbjct: 258 QTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPD 317

Query: 372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR 425
            R  +L + + +  K  LS++V L+  V   P ++S ADI +IC  A  +A+R+
Sbjct: 318 RRQKRL-IFQTITSKMNLSEEVDLEDFVSR-PEKISAADIAAICQEAGMQAVRK 369

Length = 398

>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated

 Score =  167 bits (424), Expect = 3e-45
 Identities = 88/234 (37%), Positives = 139/234 (59%), Gaps = 19/234 (8%)

Query: 204 VSWEDIGGLSKLKAE---ILSTFRGVNRTSGLKRS---GLLLYGPPGTGKTLIAKAVATE 257
           +++ DI G+ + K E   ++S  +   R + +      G+LL GPPGTGKTL+AKA+A E
Sbjct: 180 ITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGE 239

Query: 258 CRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSG 317
             + F ++ G E +  ++G     +R++F KA+  +PC+VF DE+D++  +RG     +G
Sbjct: 240 AEVPFFSISGSEFVEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRG-----AG 294

Query: 318 V------MDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
           +       ++ ++QLL EMDG   ++ V ++ ATNRVD+LD A+LRPGR D+ + V L  
Sbjct: 295 IGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSL-P 353

Query: 372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR 425
           DR  +L +LK   R  KLS DVSL+ +    P   SGAD+ ++ + A     RR
Sbjct: 354 DREGRLDILKVHARNKKLSPDVSLELIARRTPG-FSGADLANLLNEAAILTARR 406

Length = 638

>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH

 Score =  160 bits (406), Expect = 1e-43
 Identities = 77/193 (39%), Positives = 118/193 (61%), Gaps = 7/193 (3%)

Query: 236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPC 295
           G+LL GPPGTGKTL+AKAVA E  + F ++ G + +  ++G     +R++F +A+  APC
Sbjct: 90  GVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPC 149

Query: 296 VVFFDELDSLAPRRGQEDQSSGVMD---RVVSQLLAEMDGVHTSQDVFILGATNRVDLLD 352
           ++F DE+D++  +RG      G  D   + ++QLL EMDG  T+  V ++ ATNR D+LD
Sbjct: 150 IIFIDEIDAVGRQRGA--GLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLD 207

Query: 353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIY 412
           PA+LRPGR D+ + V L  D   +  +LK   +  KL+ DV L ++    P   SGAD+ 
Sbjct: 208 PALLRPGRFDRQVVVDL-PDIKGREEILKVHAKNKKLAPDVDLKAVARRTPG-FSGADLA 265

Query: 413 SICSNAWTRAIRR 425
           ++ + A   A R+
Sbjct: 266 NLLNEAALLAARK 278

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 [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 495

>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like protein; Provisional

 Score =  153 bits (389), Expect = 1e-41
 Identities = 88/232 (37%), Positives = 134/232 (57%), Gaps = 12/232 (5%)

Query: 202 PNVSWEDIGGLS------KLKAEILSTFRGVNRTSGLKR-SGLLLYGPPGTGKTLIAKAV 254
           P  S+ DIGGL       K   E+  T   +    G+K   G++LYGPPGTGKTL+AKAV
Sbjct: 178 PLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAV 237

Query: 255 ATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ 314
           A E    FL V G EL+ KY+G   + +R +F  A   AP +VF DE+D++  +R  +  
Sbjct: 238 ANETSATFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKR-YDAT 296

Query: 315 SSGVMD--RVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
           S G  +  R + +LL ++DG  +  DV ++ ATNR++ LDPA++RPGR+D+ +      D
Sbjct: 297 SGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPN-PD 355

Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
             ++  + +    K  L++DV L+  +     ++SGADI +IC+ A   A+R
Sbjct: 356 EKTKRRIFEIHTSKMTLAEDVDLEEFIMA-KDELSGADIKAICTEAGLLALR 406

Length = 438

>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed

 Score =  145 bits (366), Expect = 2e-37
 Identities = 79/238 (33%), Positives = 139/238 (58%), Gaps = 20/238 (8%)

Query: 205 SWEDIGGLSKLK---AEILSTFRGVNR---TSGLKRSGLLLYGPPGTGKTLIAKAVATEC 258
           ++ D+ G  + K   AE++   R  +R     G    G+L+ GPPGTGKTL+AKA+A E 
Sbjct: 150 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA 209

Query: 259 RMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQ-----ED 313
           ++ F  + G + +  ++G     +R++F +A+ AAPC++F DE+D++  +RG       D
Sbjct: 210 KVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHD 269

Query: 314 QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDR 373
           +     ++ ++Q+L EMDG   ++ + ++ ATNR D+LDPA+LRPGR D+ + VGL + R
Sbjct: 270 ER----EQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVR 325

Query: 374 ISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNA---WTRAIRRIIT 428
             +  +LK  +R+  L+ D+    +    P   SGAD+ ++ + A     R  +R+++
Sbjct: 326 -GREQILKVHMRRVPLAPDIDAAIIARGTPG-FSGADLANLVNEAALFAARGNKRVVS 381

Length = 644

>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

 Score =  139 bits (351), Expect = 5e-36
 Identities = 89/239 (37%), Positives = 129/239 (53%), Gaps = 18/239 (7%)

Query: 235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAP 294
            G+LL+GPPGTGKTL+A+A+A      FL++ GPE+L+KY+G+SE  +R +F +A   AP
Sbjct: 19  KGVLLHGPPGTGKTLLARALA-NEGAEFLSINGPEILSKYVGESELRLRELFEEAEKLAP 77

Query: 295 CVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPA 354
            ++F DE+D+LAP+R  +        RVV+QLLA MDG+     V ++GATNR D LDPA
Sbjct: 78  SIIFIDEIDALAPKRSSDQGEVE--RRVVAQLLALMDGLK-RGQVIVIGATNRPDGLDPA 134

Query: 355 ILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLV---HHFPSQMSGADI 411
             RPGR D+ + V L  D   +L +L+   R   L    +  +L           SGAD+
Sbjct: 135 KRRPGRFDREIEVNL-PDEAGRLEILQIHTRLMFLGPPGTGKTLAARTVGK----SGADL 189

Query: 412 YSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLS 470
            ++   A  R +RR I     +    + VT DDF  A                ++ +L 
Sbjct: 190 GALAKEAALRELRRAI----DLVGEYIGVTEDDFEEALKKVLPSRGVLFED--EDVTLD 242

Length = 494

>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

 Score =  140 bits (354), Expect = 5e-36
 Identities = 75/217 (34%), Positives = 125/217 (57%), Gaps = 9/217 (4%)

Query: 202 PNVSWEDIGGLSKLKA---EILSTFRGVNRTSGLKR---SGLLLYGPPGTGKTLIAKAVA 255
             V++ D+ G+ + K    E++   +   +   L      G+LL GPPGTGKTL+AKAVA
Sbjct: 145 VKVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVA 204

Query: 256 TECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS 315
            E  + F ++ G + +  ++G     +R++F +A+  APC++F DE+D++  +RG     
Sbjct: 205 GEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGG 264

Query: 316 SGVM-DRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRI 374
                ++ ++QLL EMDG   ++ V ++ ATNR D+LDPA+LRPGR D+ + V L + + 
Sbjct: 265 GNDEREQTLNQLLVEMDGFGGNEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKG 324

Query: 375 SQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADI 411
            +  +LK   +   L++DV L  +    P   SGAD+
Sbjct: 325 RE-QILKVHAKNKPLAEDVDLKKIARGTPG-FSGADL 359

Length = 596

>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General function prediction only]

 Score =  136 bits (343), Expect = 7e-36
 Identities = 82/231 (35%), Positives = 127/231 (54%), Gaps = 15/231 (6%)

Query: 201 VPNVSWEDIGG--LSKLKAEILSTF-RGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE 257
           + +++ +D+ G   +K K  ++  +     R        +L YGPPGTGKT++AKA+A E
Sbjct: 115 ISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANE 174

Query: 258 CRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLA-PRRGQEDQSS 316
            ++  L VK  EL+ +++G     I  ++ +AR AAPC+VF DELD++A  RR QE +  
Sbjct: 175 AKVPLLLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELR-- 232

Query: 317 GVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL--YEDRI 374
           G +  +V+ LL E+DG+  ++ V  + ATNR +LLDPAI    R ++ +   L   E+R+
Sbjct: 233 GDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAI--RSRFEEEIEFKLPNDEERL 290

Query: 375 SQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYS-ICSNAWTRAIR 424
               +L+   +KF L  D  L  L       MSG DI   +   A  RAI 
Sbjct: 291 E---ILEYYAKKFPLPVDADLRYLAAK-TKGMSGRDIKEKVLKTALHRAIA 337

Length = 368

>gnl|CDD|99707 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

 Score =  101 bits (252), Expect = 2e-25
 Identities = 46/143 (32%), Positives = 66/143 (46%), Gaps = 15/143 (10%)

Query: 233 KRSGLLLYGPPGTGKTLIAKAVATECRM---NFLAVKGPELLNKYIGQSEEN---IRNVF 286
               LLLYGPPGTGKT +A+A+A E       FL +   +LL   +         +R +F
Sbjct: 18  PPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLF 77

Query: 287 LKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN 346
             A  A P V+F DE+DSL+             + ++  L    D     ++V ++GATN
Sbjct: 78  ELAEKAKPGVLFIDEIDSLSRG---------AQNALLRVLETLNDLRIDRENVRVIGATN 128

Query: 347 RVDLLDPAILRPGRLDKSLYVGL 369
           R  L D       RLD  + + L
Sbjct: 129 RPLLGDLDRALYDRLDIRIVIPL 151

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. Length = 151

>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional

 Score = 84.3 bits (209), Expect = 2e-17
 Identities = 61/184 (33%), Positives = 92/184 (50%), Gaps = 21/184 (11%)

Query: 202 PNVSWEDIGGLSKLK------AEILSTFRGVNRTSGLKR-SGLLLYGPPGTGKTLIAKAV 254
            N    DIGGL  LK      +   S  +  N   GL    GLLL G  GTGK+L AKA+
Sbjct: 223 VNEKISDIGGLDNLKDWLKKRSTSFSK-QASN--YGLPTPRGLLLVGIQGTGKSLTAKAI 279

Query: 255 ATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ 314
           A + ++  L +   +L    +G+SE  +R +   A + +PC+++ DE+D  A    +   
Sbjct: 280 ANDWQLPLLRLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDK-AFSNSESKG 338

Query: 315 SSGVMDRVVSQL---LAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL-- 369
            SG  +RV++     L+E      S  VF++   N +DLL   ILR GR D+  ++ L  
Sbjct: 339 DSGTTNRVLATFITWLSE----KKSP-VFVVATANNIDLLPLEILRKGRFDEIFFLDLPS 393

Query: 370 YEDR 373
            E+R
Sbjct: 394 LEER 397

Length = 489

>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 73.2 bits (179), Expect = 2e-15
 Identities = 39/156 (25%), Positives = 65/156 (41%), Gaps = 25/156 (16%)

Query: 233 KRSGLLLYGPPGTGKTLIAKAVATECRMN---FLAVKGPELL--------------NKYI 275
               +L+ GPPG+GKT +A+A+A E        + + G ++L               K  
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60

Query: 276 GQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT 335
           G  E  +R     AR   P V+  DE+ SL     +         R++  L +E      
Sbjct: 61  GSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSE------ 114

Query: 336 SQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
            +++ ++  TN    L PA+LR  R D+ + + L  
Sbjct: 115 -KNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148

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. Length = 148

>gnl|CDD|188437 TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA

 Score = 58.3 bits (141), Expect = 4e-09
 Identities = 36/120 (30%), Positives = 51/120 (42%), Gaps = 12/120 (10%)

Query: 237 LLLYGPPGTGKTLIAKAVATE-CRMNFLA------VKGPELLNKYIGQSEENIRNVFLKA 289
           +L  GPPGTGKT IA+ VA   C +  L       V   +L+ +YIG+SE     +   A
Sbjct: 315 MLFAGPPGTGKTTIARVVAKIYCGLGVLRKPLVREVSRADLIGQYIGESEAKTNEIIDSA 374

Query: 290 RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD 349
                 V+F DE  +L      +    G+    +  LLA M+       V   G    +D
Sbjct: 375 LGG---VLFLDEAYTLVETGYGQKDPFGLE--AIDTLLARMENDRDRLVVIGAGYRKDLD 429

This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc [Protein fate, Protein and peptide secretion and trafficking]. Length = 557

>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed

 Score = 45.1 bits (108), Expect = 5e-05
 Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 17/72 (23%)

Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFL---AVKGPELLNKYIGQSEENIRNVFLKARSAA 293
           ++L+GPPGTGKT +A+ +A      F    AV          G  +  +R V  +AR   
Sbjct: 39  MILWGPPGTGKTTLARIIAGATDAPFEALSAVTS--------GVKD--LREVIEEARQRR 88

Query: 294 ----PCVVFFDE 301
                 ++F DE
Sbjct: 89  SAGRRTILFIDE 100

Length = 413

>gnl|CDD|163057 TIGR02881, spore_V_K, stage V sporulation protein K

 Score = 43.9 bits (104), Expect = 8e-05
 Identities = 43/129 (33%), Positives = 67/129 (51%), Gaps = 20/129 (15%)

Query: 211 GLSKLKAEI--LSTFRGVN---RTSGLKRSGLLLY----GPPGTGKTLIAKAVATECR-M 260
           GL ++KA I  +  +  +N   +  GLK S  +L+    G PGTGKT +A+ +    + M
Sbjct: 10  GLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEM 69

Query: 261 NFLA------VKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ 314
           N L+      V+  +L+ +YIG + +  R V  KA      V+F DE  SLA R G++D 
Sbjct: 70  NVLSKGHLIEVERADLVGEYIGHTAQKTREVIKKALGG---VLFIDEAYSLA-RGGEKDF 125

Query: 315 SSGVMDRVV 323
               +D +V
Sbjct: 126 GKEAIDTLV 134

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 [Cellular processes, Sporulation and germination]. Length = 261

>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction only]

 Score = 44.0 bits (104), Expect = 1e-04
 Identities = 38/181 (20%), Positives = 74/181 (40%), Gaps = 30/181 (16%)

Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAV------KGPELLNKYIGQSEENIRNVF-LKA 289
           +LL GPPG GKTL+A+A+A    + F+ +         +LL  Y   +       F    
Sbjct: 46  VLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVP 105

Query: 290 R---SAAPCVVFFDELDSLAPRRGQEDQSS--GVM-DRVVSQLLAEMDGVHTSQDVFILG 343
               +A   ++  DE++   P    E Q++    + +R V+  +  +  +       ++ 
Sbjct: 106 GPLFAAVRVILLLDEINRAPP----EVQNALLEALEERQVT--VPGLTTIRLPPPFIVIA 159

Query: 344 ATNRVDL-----LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSL 398
             N  +      L  A+L   R    +YV   +    +    + ++ +    D++ L+SL
Sbjct: 160 TQNPGEYEGTYPLPEALLD--RFLLRIYVDYPDSEEEE----RIILARVGGVDELDLESL 213

Query: 399 V 399
           V
Sbjct: 214 V 214

Length = 329

>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated

 Score = 43.1 bits (102), Expect = 1e-04
 Identities = 28/94 (29%), Positives = 44/94 (46%), Gaps = 16/94 (17%)

Query: 236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKG---PELLNK----YIGQSEENIRNVFLK 288
           GLLL+G  GTGKT +A  +A E     + V     P+LLN+    Y    +E+  N  ++
Sbjct: 116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKSTYKSSGKED-ENEIIR 174

Query: 289 ARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRV 322
           +   A  ++    LD L    G E  +    ++V
Sbjct: 175 SLVNADLLI----LDDL----GAERDTEWAREKV 200

Length = 268

>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

 Score = 43.3 bits (103), Expect = 2e-04
 Identities = 20/45 (44%), Positives = 24/45 (53%)

Query: 211 GLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA 255
           GL K+K  IL        T  LK   L L GPPG GKT + K++A
Sbjct: 327 GLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIA 371

Length = 782

>gnl|CDD|232949 TIGR00382, clpX, endopeptidase Clp ATP-binding regulatory subunit (clpX)

 Score = 42.8 bits (101), Expect = 3e-04
 Identities = 26/81 (32%), Positives = 42/81 (51%), Gaps = 6/81 (7%)

Query: 232 LKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK-YIGQSEENIRNVFLKA- 289
           L +S +LL GP G+GKTL+A+ +A    + F       L    Y+G+  ENI    L+A 
Sbjct: 114 LSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGYVGEDVENILLKLLQAA 173

Query: 290 ----RSAAPCVVFFDELDSLA 306
                 A   +++ DE+D ++
Sbjct: 174 DYDVEKAQKGIIYIDEIDKIS 194

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 [Protein fate, Protein folding and stabilization, Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 413

>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed

 Score = 41.8 bits (99), Expect = 4e-04
 Identities = 38/98 (38%), Positives = 45/98 (45%), Gaps = 33/98 (33%)

Query: 237 LLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELLNKYIGQSEEN----IRNVFL 287
           LL  GPPGTGKT  A A+A E      R NFL       LN     S+E     IRN  +
Sbjct: 41  LLFAGPPGTGKTTAALALARELYGEDWRENFLE------LNA----SDERGIDVIRNK-I 89

Query: 288 K--ARSAAPC-----VVFFDELDSL------APRRGQE 312
           K  AR+A        ++F DE D+L      A RR  E
Sbjct: 90  KEFARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTME 127

Length = 319

>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed

 Score = 40.9 bits (97), Expect = 0.001
 Identities = 17/34 (50%), Positives = 21/34 (61%)

Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL 270
           +LLYGPPG GKT +A  +A E  +N     GP L
Sbjct: 54  VLLYGPPGLGKTTLANIIANEMGVNIRITSGPAL 87

Length = 328

>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown domain fusion protein; Reviewed

 Score = 40.8 bits (96), Expect = 0.001
 Identities = 14/31 (45%), Positives = 21/31 (67%)

Query: 235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAV 265
             L+LYGPPG GKT +A+ +A   R +F ++
Sbjct: 53  GSLILYGPPGVGKTTLARIIANHTRAHFSSL 83

Length = 725

>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

 Score = 40.2 bits (95), Expect = 0.002
 Identities = 17/37 (45%), Positives = 22/37 (59%), Gaps = 1/37 (2%)

Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK 273
           +LL+GPPG GKT +A  +A E  +N     GP  L K
Sbjct: 55  VLLFGPPGLGKTTLAHIIANELGVNLKITSGP-ALEK 90

Length = 332

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 2/33 (6%)

Query: 230 SGLKRSGLLLYGPPGTGKTLIAKAVATECRMNF 262
            G  +  LLLYGPPG GKT +A A+A +    +
Sbjct: 35  KGKPKKALLLYGPPGVGKTSLAHALAND--YGW 65

Length = 482

>gnl|CDD|222165 pfam13481, AAA_25, AAA domain

 Score = 38.0 bits (89), Expect = 0.003
 Identities = 33/112 (29%), Positives = 44/112 (39%), Gaps = 21/112 (18%)

Query: 238 LLYGPPGTGKTL----IAKAVAT--ECRMNFLAVKGPELLNKYIG--QSEENIRNVFLKA 289
           LL G PGTGK+     +A AVAT       F    G  L   Y+    SE  +R      
Sbjct: 37  LLAGAPGTGKSTLALDLAAAVATGRPFLGPFPVEPGRVL---YLDGEDSEAGLRRRLRAL 93

Query: 290 RSAA-----PCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQL--LAEMDGVH 334
             A      P +V  D L SL    G E+  +  +  +++ L  LA   G  
Sbjct: 94  GEALEEIEGPDLVVIDPLASLLG--GDEN-DNAAVGALLAALDRLARRTGAA 142

This AAA domain is found in a wide variety of presumed DNA repair proteins. Length = 154

>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI

 Score = 38.7 bits (91), Expect = 0.003
 Identities = 11/20 (55%), Positives = 16/20 (80%)

Query: 237 LLLYGPPGTGKTLIAKAVAT 256
           LL+ GPPG+GKT++AK +  
Sbjct: 25  LLMIGPPGSGKTMLAKRLPG 44

Magnesium-chelatase is a three-component enzyme that catalyzes the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa. Length = 207

>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La

 Score = 39.6 bits (93), Expect = 0.004
 Identities = 22/63 (34%), Positives = 29/63 (46%)

Query: 194 DQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKA 253
           + LD      +  ED  GL K+K  IL           +K   L L GPPG GKT + K+
Sbjct: 307 ENLDLKRAKEILDEDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKS 366

Query: 254 VAT 256
           +A 
Sbjct: 367 IAK 369

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 [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 775

>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

 Score = 39.1 bits (92), Expect = 0.004
 Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 11/69 (15%)

Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR----SA 292
           ++L+GPPGTGKT +A+ +A      F A+         +    +++R +  +AR      
Sbjct: 51  MILWGPPGTGKTTLARLIAGTTNAAFEALSA-------VTSGVKDLREIIEEARKNRLLG 103

Query: 293 APCVVFFDE 301
              ++F DE
Sbjct: 104 RRTILFLDE 112

Length = 436

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	478
KOG0733|consensus	802		100.0
KOG0730|consensus	693		100.0
KOG0736|consensus	953		100.0
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	100.0
KOG0735|consensus	952		100.0
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	100.0
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	100.0
CHL00195	489	ycf46 Ycf46; Provisional	100.0
KOG0738|consensus	491		100.0
KOG0733|consensus	802		100.0
KOG0734|consensus	752		100.0
KOG0739|consensus	439		100.0
KOG0727|consensus	408		100.0
KOG0728|consensus	404		100.0
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	100.0
KOG0731|consensus	774		100.0
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	100.0
KOG0726|consensus	440		100.0
KOG0652|consensus	424		100.0
KOG0737|consensus	386		100.0
PRK03992	389	proteasome-activating nucleotidase; Provisional	100.0
KOG0729|consensus	435		100.0
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	100.0
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	100.0
KOG0741|consensus	744		100.0
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	100.0
KOG0741|consensus	744		100.0
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	100.0
KOG0651|consensus	388		100.0
CHL00176	638	ftsH cell division protein; Validated	100.0
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	100.0
KOG0740|consensus	428		100.0
KOG0730|consensus	693		100.0
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	100.0
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.98
CHL00206	2281	ycf2 Ycf2; Provisional	99.98
KOG0732|consensus	1080		99.97
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.97
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.97
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.96
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.95
KOG0736|consensus	953		99.95
KOG0738|consensus	491		99.94
KOG0732|consensus	1080		99.94
KOG0734|consensus	752		99.93
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.92
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.91
KOG0735|consensus	952		99.91
CHL00095	821	clpC Clp protease ATP binding subunit	99.91
KOG0739|consensus	439		99.91
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.9
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.9
KOG0652|consensus	424		99.89
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.89
PRK10865	857	protein disaggregation chaperone; Provisional	99.88
CHL00181	287	cbbX CbbX; Provisional	99.88
KOG0728|consensus	404		99.88
PF00004	132	AAA: ATPase family associated with various cellula	99.87
KOG0737|consensus	386		99.87
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.87
KOG0727|consensus	408		99.87
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.87
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.86
KOG0731|consensus	774		99.86
KOG0726|consensus	440		99.86
KOG0743|consensus	457		99.85
KOG0744|consensus	423		99.85
KOG0742|consensus	630		99.85
CHL00195	489	ycf46 Ycf46; Provisional	99.85
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.85
CHL00206	2281	ycf2 Ycf2; Provisional	99.83
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.83
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.83
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.82
KOG0729|consensus	435		99.82
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.81
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.8
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.8
KOG0740|consensus	428		99.8
CHL00176	638	ftsH cell division protein; Validated	99.77
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.77
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.76
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.75
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.74
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.72
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.72
KOG0651|consensus	388		99.71
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.71
KOG2004|consensus	906		99.7
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.7
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.69
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.68
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.68
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.66
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.66
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.65
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.65
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.65
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.64
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.64
PRK04195	482	replication factor C large subunit; Provisional	99.64
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.64
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.63
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.63
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.61
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.61
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.6
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.6
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.6
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.6
PRK10865	857	protein disaggregation chaperone; Provisional	99.6
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.59
PRK12422	445	chromosomal replication initiation protein; Provis	99.59
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.59
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.59
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.59
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.59
PRK13342	413	recombination factor protein RarA; Reviewed	99.59
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.58
PRK12402	337	replication factor C small subunit 2; Reviewed	99.58
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.57
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.57
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.57
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.56
KOG0989|consensus	346		99.56
CHL00095	821	clpC Clp protease ATP binding subunit	99.56
PLN03025	319	replication factor C subunit; Provisional	99.56
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.56
PHA02544	316	44 clamp loader, small subunit; Provisional	99.56
PRK06893	229	DNA replication initiation factor; Validated	99.55
PRK08084	235	DNA replication initiation factor; Provisional	99.55
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.55
PRK05642	234	DNA replication initiation factor; Validated	99.54
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.54
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.54
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.54
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.54
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.53
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.53
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.53
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.53
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.52
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.52
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.52
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.52
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.52
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.52
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.51
KOG2028|consensus	554		99.51
PRK06620	214	hypothetical protein; Validated	99.51
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.5
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.5
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.5
PRK08727	233	hypothetical protein; Validated	99.5
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.48
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.47
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.46
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.46
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.46
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.46
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.46
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.45
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.45
PRK13341	725	recombination factor protein RarA/unknown domain f	99.44
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.44
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.43
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.43
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.42
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.42
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.41
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.4
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.35
PRK09087	226	hypothetical protein; Validated	99.35
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.34
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	99.34
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.3
PHA02244	383	ATPase-like protein	99.29
KOG1969|consensus	877		99.29
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.29
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.28
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.28
KOG1051|consensus	898		99.26
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.26
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.23
COG0714	329	MoxR-like ATPases [General function prediction onl	99.21
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.2
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.19
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.18
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.18
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.17
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.17
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.17
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.16
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.16
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.16
CHL00181	287	cbbX CbbX; Provisional	99.15
KOG0991|consensus	333		99.14
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	99.14
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.13
COG2204	464	AtoC Response regulator containing CheY-like recei	99.13
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.13
smart00382	148	AAA ATPases associated with a variety of cellular	99.12
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.12
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.11
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.09
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.08
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	99.07
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.07
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	99.07
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	99.06
smart00350	509	MCM minichromosome maintenance proteins.	99.06
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.06
PRK05022	509	anaerobic nitric oxide reductase transcription reg	99.05
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.04
PRK13531	498	regulatory ATPase RavA; Provisional	99.03
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.03
PF07726	131	AAA_3: ATPase family associated with various cellu	99.03
PRK04132	846	replication factor C small subunit; Provisional	99.02
KOG1514|consensus	767		99.01
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.01
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.0
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.0
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.0
KOG0742|consensus	630		99.0
KOG2227|consensus	529		99.0
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.0
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.99
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.99
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.99
PRK06964	342	DNA polymerase III subunit delta'; Validated	98.98
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.97
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.96
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.95
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.94
KOG0744|consensus	423		98.93
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.92
PRK12377	248	putative replication protein; Provisional	98.91
PRK08116	268	hypothetical protein; Validated	98.89
PRK07952	244	DNA replication protein DnaC; Validated	98.88
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.88
KOG0745|consensus	564		98.88
PRK06090	319	DNA polymerase III subunit delta'; Validated	98.85
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.85
PRK08181	269	transposase; Validated	98.82
PRK13765	637	ATP-dependent protease Lon; Provisional	98.78
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	98.77
PRK09862	506	putative ATP-dependent protease; Provisional	98.76
PRK08939	306	primosomal protein DnaI; Reviewed	98.76
PRK06526	254	transposase; Provisional	98.74
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.72
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.71
PRK06921	266	hypothetical protein; Provisional	98.71
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.7
PRK06835	329	DNA replication protein DnaC; Validated	98.67
PRK09183	259	transposase/IS protein; Provisional	98.66
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.66
KOG1942|consensus	456		98.65
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	98.63
PF13173	128	AAA_14: AAA domain	98.63
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.6
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.58
KOG0990|consensus	360		98.58
KOG2035|consensus	351		98.58
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.57
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.56
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.56
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	98.56
KOG2680|consensus	454		98.54
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.53
PF00004	132	AAA: ATPase family associated with various cellula	98.47
PRK15115	444	response regulator GlrR; Provisional	98.46
PRK05917	290	DNA polymerase III subunit delta'; Validated	98.45
KOG2228|consensus	408		98.42
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.39
KOG1970|consensus	634		98.37
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.33
PRK10365	441	transcriptional regulatory protein ZraR; Provision	98.32
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.31
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.29
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.27
PRK05818	261	DNA polymerase III subunit delta'; Validated	98.26
COG1241	682	MCM2 Predicted ATPase involved in replication cont	98.26
PRK07276	290	DNA polymerase III subunit delta'; Validated	98.26
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	98.24
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.22
PRK07132	299	DNA polymerase III subunit delta'; Validated	98.21
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.2
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.19
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.18
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.18
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.16
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.16
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.15
PF05729	166	NACHT: NACHT domain	98.14
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	98.13
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.12
KOG2170|consensus	344		98.1
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.09
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	98.07
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.02
PHA00729	226	NTP-binding motif containing protein	98.01
TIGR02237	209	recomb_radB DNA repair and recombination protein R	98.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	97.99
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.97
PRK15455	644	PrkA family serine protein kinase; Provisional	97.93
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	97.92
PRK12422	445	chromosomal replication initiation protein; Provis	97.91
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	97.91
) 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	97.89
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.89
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.88
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.88
KOG0478|consensus	804		97.87
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.85
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	97.85
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.84
PRK08118	167	topology modulation protein; Reviewed	97.83
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.83
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.82
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.8
KOG0482|consensus	721		97.79
PRK07261	171	topology modulation protein; Provisional	97.78
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.78
PRK06893	229	DNA replication initiation factor; Validated	97.75
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.73
KOG1968|consensus	871		97.73
PRK11823	446	DNA repair protein RadA; Provisional	97.72
COG1485	367	Predicted ATPase [General function prediction only	97.69
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.69
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.68
KOG2383|consensus	467		97.67
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.67
PRK04296	190	thymidine kinase; Provisional	97.65
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.65
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	97.65
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.63
COG4650	531	RtcR Sigma54-dependent transcription regulator con	97.63
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.63
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.62
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.62
KOG0480|consensus	764		97.61
PRK09354	349	recA recombinase A; Provisional	97.6
PRK13342	413	recombination factor protein RarA; Reviewed	97.59
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.58
KOG3347|consensus	176		97.58
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.57
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	97.57
COG2256	436	MGS1 ATPase related to the helicase subunit of the	97.56
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.56
PRK10536	262	hypothetical protein; Provisional	97.56
PRK06762	166	hypothetical protein; Provisional	97.56
KOG1051|consensus	898		97.55
PRK00131	175	aroK shikimate kinase; Reviewed	97.55
KOG2543|consensus	438		97.54
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.54
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.54
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	97.54
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	97.54
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.53
PRK06067	234	flagellar accessory protein FlaH; Validated	97.53
PHA02624	647	large T antigen; Provisional	97.52
PRK14974	336	cell division protein FtsY; Provisional	97.52
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.52
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	97.52
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.51
PRK08727	233	hypothetical protein; Validated	97.5
COG4619	223	ABC-type uncharacterized transport system, ATPase	97.5
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.49
KOG0477|consensus	854		97.48
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.47
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.47
PRK13947	171	shikimate kinase; Provisional	97.46
PRK03839	180	putative kinase; Provisional	97.44
PRK00625	173	shikimate kinase; Provisional	97.43
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.41
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.41
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.4
PRK13695	174	putative NTPase; Provisional	97.39
PF14516	331	AAA_35: AAA-like domain	97.39
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.39
cd01128	249	rho_factor Transcription termination factor rho is	97.39
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.39
PRK06581	263	DNA polymerase III subunit delta'; Validated	97.38
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.38
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.37
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.37
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	97.35
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.35
PRK13949	169	shikimate kinase; Provisional	97.34
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.32
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.32
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.31
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	97.31
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.31
PRK14532	188	adenylate kinase; Provisional	97.31
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.3
PRK13948	182	shikimate kinase; Provisional	97.3
PRK06217	183	hypothetical protein; Validated	97.29
PRK06696	223	uridine kinase; Validated	97.29
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	97.29
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.29
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	97.28
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	97.28
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.28
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.28
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.27
KOG0743|consensus	457		97.27
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	97.27
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.27
KOG2028|consensus	554		97.26
PRK14531	183	adenylate kinase; Provisional	97.25
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	97.25
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	97.24
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.23
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.23
PRK09376	416	rho transcription termination factor Rho; Provisio	97.23
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.22
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	97.22
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	97.22
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.21
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.21
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	97.19
PRK08084	235	DNA replication initiation factor; Provisional	97.19
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	97.19
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.18
PTZ00202	550	tuzin; Provisional	97.18
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.17
PRK14530	215	adenylate kinase; Provisional	97.17
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.15
PRK13764	602	ATPase; Provisional	97.15
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.15
TIGR02533	486	type_II_gspE general secretory pathway protein E.	97.14
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.14
PRK06547	172	hypothetical protein; Provisional	97.13
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.13
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.13
PTZ00088	229	adenylate kinase 1; Provisional	97.12
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.11
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.11
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.11
PRK10867	433	signal recognition particle protein; Provisional	97.11
PRK13833	323	conjugal transfer protein TrbB; Provisional	97.11
PF13245	76	AAA_19: Part of AAA domain	97.1
PRK03731	171	aroL shikimate kinase II; Reviewed	97.1
PRK05057	172	aroK shikimate kinase I; Reviewed	97.09
PRK13946	184	shikimate kinase; Provisional	97.09
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	97.09
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	97.08
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	97.07
PRK09519	790	recA DNA recombination protein RecA; Reviewed	97.06
PRK14528	186	adenylate kinase; Provisional	97.06
PRK10436	462	hypothetical protein; Provisional	97.04
PRK04841	903	transcriptional regulator MalT; Provisional	97.04
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	97.04
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.04
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.04
PRK09087	226	hypothetical protein; Validated	97.04
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	97.03
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.02
PF08303	168	tRNA_lig_kinase: tRNA ligase kinase domain; InterP	97.02
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.02
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	97.01
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.01
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.01
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.0
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.0
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	97.0
PLN02200	234	adenylate kinase family protein	97.0
PRK02496	184	adk adenylate kinase; Provisional	96.99
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.99
TIGR00959	428	ffh signal recognition particle protein. This mode	96.99
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.99
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.99
PRK06620	214	hypothetical protein; Validated	96.98
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.97
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.97
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	96.97
cd03246	173	ABCC_Protease_Secretion This family represents the	96.96
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	96.96
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.95
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.94
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	96.94
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.94
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.93
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.93
PRK05973	237	replicative DNA helicase; Provisional	96.93
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.92
PRK04040	188	adenylate kinase; Provisional	96.92
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.92
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.92
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.92
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.91
PRK05642	234	DNA replication initiation factor; Validated	96.91
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.91
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.89
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.89
PHA02530	300	pseT polynucleotide kinase; Provisional	96.89
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	96.89
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	96.88
PRK00279	215	adk adenylate kinase; Reviewed	96.87

>KOG0733|consensus

Probab=100.00  E-value=1.6e-81  Score=618.79  Aligned_cols=434  Identities=34%  Similarity=0.550  Sum_probs=382.9

Q ss_pred             HHHhhHHHHHHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhcccccccccc
Q psy450            7 FHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKS   76 (478)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~   76 (478)
                      |.++--++|.    |.+-|+..+ ++|.+|+ .|+.++|||+||||||+|.++|          +|.+||+.||.+....
T Consensus       251 f~~isApeiv----SGvSGESEk-kiRelF~-~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~  324 (802)
T KOG0733|consen  251 FLSISAPEIV----SGVSGESEK-KIRELFD-QAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEK  324 (802)
T ss_pred             eEeecchhhh----cccCcccHH-HHHHHHH-HHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccc
Confidence            4445555554    444455554 9999999 9999999999999999999997          8999999999875421


Q ss_pred             ccchhhhccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcC
Q psy450           77 NETKDQQCKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTS  147 (478)
Q Consensus        77 ~~~~~~~~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~  147 (478)
                              ..+.+|+|||       +||||+|  |||+.|.+..|+..+|.+||+.+++++  .+..++++ +.||++|+
T Consensus       325 --------~~g~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~l--rl~g~~d~-~qlA~lTP  393 (802)
T KOG0733|consen  325 --------TKGDPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGL--RLSGDFDF-KQLAKLTP  393 (802)
T ss_pred             --------cCCCCeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhC--CCCCCcCH-HHHHhcCC
Confidence                    2356799999       9999999  999999999999999999999999988  77889999 99999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhh---------------c------------------------------------------
Q psy450          148 GFERHDLTCLVRLSVKNKMLKQ---------------G------------------------------------------  170 (478)
Q Consensus       148 G~s~~di~~l~~~a~~~a~~~~---------------~------------------------------------------  170 (478)
                      ||.|+|+.++|.+|+..++.+.               .                                          
T Consensus       394 GfVGADL~AL~~~Aa~vAikR~ld~~~~p~~~~~~~ed~~~~~~~~d~S~i~~~~~~~~~~~ld~v~~~~i~~~~d~~S~  473 (802)
T KOG0733|consen  394 GFVGADLMALCREAAFVAIKRILDQSSSPLTKVPISEDSSNKDAEEDQSSIKITSNAERPLELDRVVQDAILNNPDPLSK  473 (802)
T ss_pred             CccchhHHHHHHHHHHHHHHHHhhcccCccccCCccccccCCCccchhhhhhcCCcccccccHHHHHHHHHHhCCCCcCh
Confidence            9999999999999999987540               0                                          


Q ss_pred             --CCCCCCCHHHHHHHHHHhhhhcccCCCCCCCCCCCcccccCcHHHHHHHHHHHHhh------hhhCCCC-CceEEEeC
Q psy450          171 --INKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGV------NRTSGLK-RSGLLLYG  241 (478)
Q Consensus       171 --~~~~~it~~d~~~a~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~------~~~~~~~-~~~iLl~G  241 (478)
                        .+...|..+||+.|+..++|+..+ .+...+|.++|+||+++++++.+|...+.+|      +...|.. |.|+||||
T Consensus       474 E~~~~L~i~~eDF~~Al~~iQPSakR-EGF~tVPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~G  552 (802)
T KOG0733|consen  474 ELLEGLSIKFEDFEEALSKIQPSAKR-EGFATVPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCG  552 (802)
T ss_pred             HHhccceecHHHHHHHHHhcCcchhc-ccceecCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeC
Confidence              013457888999999999998654 3467899999999999999999999999998      3455666 99999999


Q ss_pred             CCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHH
Q psy450          242 PPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDR  321 (478)
Q Consensus       242 p~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~  321 (478)
                      |||||||.+|+|+|++.|.+|+.|.+++++++|+|+++..++++|.+|+.+.||||||||+|+|.++|+.++  +....+
T Consensus       553 PPGCGKTLlAKAVANEag~NFisVKGPELlNkYVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~--s~~s~R  630 (802)
T KOG0733|consen  553 PPGCGKTLLAKAVANEAGANFISVKGPELLNKYVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDEG--SSVSSR  630 (802)
T ss_pred             CCCccHHHHHHHHhhhccCceEeecCHHHHHHHhhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCCC--chhHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999997665  445589


Q ss_pred             HHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHh--cCCCCCCCCHHHHH
Q psy450          322 VVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVR--KFKLSDDVSLDSLV  399 (478)
Q Consensus       322 ~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~--~~~~~~~~~~~~la  399 (478)
                      ++++||.+|||+....+|.||++||+|+.+||+++||||||+.+|+++ |+.++|.+||+..++  +.+++.++++++|+
T Consensus       631 vvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~l-Pn~~eR~~ILK~~tkn~k~pl~~dVdl~eia  709 (802)
T KOG0733|consen  631 VVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGL-PNAEERVAILKTITKNTKPPLSSDVDLDEIA  709 (802)
T ss_pred             HHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecC-CCHHHHHHHHHHHhccCCCCCCcccCHHHHh
Confidence            999999999999999999999999999999999999999999999998 699999999999999  77889999999999


Q ss_pred             HhcC-CCCCHHHHHHHHHHHHHHHHHHHHhcCCCC------CCCCccccHHHHHhchhccCCCcccccccccccc
Q psy450          400 HHFP-SQMSGADIYSICSNAWTRAIRRIITSAPQV------KSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNY  467 (478)
Q Consensus       400 ~~~~-~~~sg~di~~l~~~a~~~a~~r~~~~~~~~------~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~  467 (478)
                      .... +||||+||..+|++|...|+++.+......      ......+|..||++|      +++++||+++.|-
T Consensus       710 ~~~~c~gftGADLaaLvreAsi~AL~~~~~~~~~~~~~~~~~~~~~~~t~~hF~eA------~~~i~pSv~~~dr  778 (802)
T KOG0733|consen  710 RNTKCEGFTGADLAALVREASILALRESLFEIDSSEDDVTVRSSTIIVTYKHFEEA------FQRIRPSVSERDR  778 (802)
T ss_pred             hcccccCCchhhHHHHHHHHHHHHHHHHHhhccccCcccceeeeeeeecHHHHHHH------HHhcCCCccHHHH
Confidence            8652 599999999999999999999987543211      112456899999999      9999999997654

>KOG0730|consensus

Probab=100.00  E-value=1.6e-76  Score=592.25  Aligned_cols=407  Identities=37%  Similarity=0.582  Sum_probs=374.4

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcC-CCeEEEecccccccc---------hhhHhhhccccccccccccchhhhccCCC
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYN-LDIFKYDEVNYLCNV---------KYVYFKLCSFDSVNVKSNETKDQQCKQQH   88 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~-p~ilfiDe~d~i~~~---------r~~~~~l~~~d~~~~~~~~~~~~~~~~~~   88 (478)
                      ++++|-++++. ++|++|. .|.+++ |+||||||+|+||++         |++.++++.||++            .+..
T Consensus       254 li~k~~gEte~-~LR~~f~-~a~k~~~psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~------------~~~~  319 (693)
T KOG0730|consen  254 LISKFPGETES-NLRKAFA-EALKFQVPSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGL------------KPDA  319 (693)
T ss_pred             HHHhcccchHH-HHHHHHH-HHhccCCCeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhC------------cCcC
Confidence            45556555555 9999999 999999 999999999999974         4788999999965            5577


Q ss_pred             cEEEEe-------eCHhHHh-ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHH
Q psy450           89 KKKLVL-------IRKQIQK-LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRL  160 (478)
Q Consensus        89 ~v~via-------ld~al~r-Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~  160 (478)
                      .|+|++       ||||++| |||+.+++..|+..+|++|++.+++.+  ++..++++ ..+|..|+||.|+|+..+|++
T Consensus       320 ~vivl~atnrp~sld~alRRgRfd~ev~IgiP~~~~RldIl~~l~k~~--~~~~~~~l-~~iA~~thGyvGaDL~~l~~e  396 (693)
T KOG0730|consen  320 KVIVLAATNRPDSLDPALRRGRFDREVEIGIPGSDGRLDILRVLTKKM--NLLSDVDL-EDIAVSTHGYVGADLAALCRE  396 (693)
T ss_pred             cEEEEEecCCccccChhhhcCCCcceeeecCCCchhHHHHHHHHHHhc--CCcchhhH-HHHHHHccchhHHHHHHHHHH
Confidence            899999       9999999 999999999999999999999999999  55567887 999999999999999999999


Q ss_pred             HHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhcccCCCCCCCCCCCcccccCcHHHHHHHHHHHHhhh------hhCCCC-
Q psy450          161 SVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVN------RTSGLK-  233 (478)
Q Consensus       161 a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~------~~~~~~-  233 (478)
                      |..++.++        ++++|..|...++|+..+... .+.|+++|+||+|++++|..|++.+.||.      .+.|.. 
T Consensus       397 a~~~~~r~--------~~~~~~~A~~~i~psa~Re~~-ve~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~p  467 (693)
T KOG0730|consen  397 ASLQATRR--------TLEIFQEALMGIRPSALREIL-VEMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISP  467 (693)
T ss_pred             HHHHHhhh--------hHHHHHHHHhcCCchhhhhee-ccCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCC
Confidence            99999854        889999999999999887764 78999999999999999999999999983      345644 


Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED  313 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~  313 (478)
                      |+|||||||||||||++|+++|++.+++|+.+.++++.++|+|++++.++++|++|+...||||||||||++.+.|++. 
T Consensus       468 pkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk~vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~-  546 (693)
T KOG0730|consen  468 PKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKYVGESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGS-  546 (693)
T ss_pred             CceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHHhcCchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCC-
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999999733 


Q ss_pred             CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC
Q psy450          314 QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV  393 (478)
Q Consensus       314 ~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~  393 (478)
                       .++..++++++||++|||+....+|+||++||+|+.||++++||||||..||+++ |+.+.|.+||+.+++++++++++
T Consensus       547 -~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVpl-PD~~aR~~Ilk~~~kkmp~~~~v  624 (693)
T KOG0730|consen  547 -SSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPL-PDLEARLEILKQCAKKMPFSEDV  624 (693)
T ss_pred             -ccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecC-ccHHHHHHHHHHHHhcCCCCccc
Confidence             3377899999999999999999999999999999999999999999999999998 79999999999999999999999


Q ss_pred             CHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchhccCCCcccccccccccccc
Q psy450          394 SLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSL  469 (478)
Q Consensus       394 ~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~  469 (478)
                      ++++||..+ +||||+||.++|++|+..|+++.++        ...|+++||.+|      ++..+++++..++..
T Consensus       625 dl~~La~~T-~g~SGAel~~lCq~A~~~a~~e~i~--------a~~i~~~hf~~a------l~~~r~s~~~~~~~~  685 (693)
T KOG0730|consen  625 DLEELAQAT-EGYSGAEIVAVCQEAALLALRESIE--------ATEITWQHFEEA------LKAVRPSLTSELLEK  685 (693)
T ss_pred             cHHHHHHHh-ccCChHHHHHHHHHHHHHHHHHhcc--------cccccHHHHHHH------HHhhcccCCHHHHHH
Confidence            999999998 9999999999999999999999875        457999999999      999999999877643

>KOG0736|consensus

Probab=100.00  E-value=3.7e-68  Score=536.46  Aligned_cols=428  Identities=47%  Similarity=0.730  Sum_probs=380.3

Q ss_pred             HHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCC
Q psy450           18 HLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQ   87 (478)
Q Consensus        18 ~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~   87 (478)
                      .++++.-.+++. ++..+|. .|++..|||||+-.+|.++.++          ....+++ .|           +...+.
T Consensus       466 el~~~s~~~~et-kl~~~f~-~a~~~~pavifl~~~dvl~id~dgged~rl~~~i~~~ls-~e-----------~~~~~~  531 (953)
T KOG0736|consen  466 ELVAESASHTET-KLQAIFS-RARRCSPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLS-NE-----------DFKFSC  531 (953)
T ss_pred             HHhhcccchhHH-HHHHHHH-HHhhcCceEEEEeccceeeecCCCchhHHHHHHHHHHHh-cc-----------cccCCC
Confidence            345556566666 8999999 9999999999999999998655          2333332 22           233467


Q ss_pred             CcEEEEe-------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHH
Q psy450           88 HKKKLVL-------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRL  160 (478)
Q Consensus        88 ~~v~via-------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~  160 (478)
                      +.++|||       +.+.+++-|-++|.++.|++++|.+||+.|+...  .++.++.. +.++.+|.||+.+++.+++..
T Consensus       532 ~~~ivv~t~~s~~~lp~~i~~~f~~ei~~~~lse~qRl~iLq~y~~~~--~~n~~v~~-k~~a~~t~gfs~~~L~~l~~~  608 (953)
T KOG0736|consen  532 PPVIVVATTSSIEDLPADIQSLFLHEIEVPALSEEQRLEILQWYLNHL--PLNQDVNL-KQLARKTSGFSFGDLEALVAH  608 (953)
T ss_pred             CceEEEEeccccccCCHHHHHhhhhhccCCCCCHHHHHHHHHHHHhcc--ccchHHHH-HHHHHhcCCCCHHHHHHHhcC
Confidence            7889998       8999999999999999999999999999999887  67777887 999999999999999999887


Q ss_pred             HHHHH---HHhh--------------cCCCCCCCHHHHHHHHHHhhhhcccCCCCCCCCCCCcccccCcHHHHHHHHHHH
Q psy450          161 SVKNK---MLKQ--------------GINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTF  223 (478)
Q Consensus       161 a~~~a---~~~~--------------~~~~~~it~~d~~~a~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~  223 (478)
                      .-..+   +.+.              ......++++||.+++.+++..+++.++.|.+|++.|+|++|++++|..+.+.+
T Consensus       609 ~s~~~~~~i~~~~l~g~~~~~~~~~~~~~~~~l~~edf~kals~~~~~fs~aiGAPKIPnV~WdDVGGLeevK~eIldTI  688 (953)
T KOG0736|consen  609 SSLAAKTRIKNKGLAGGLQEEDEGELCAAGFLLTEEDFDKALSRLQKEFSDAIGAPKIPNVSWDDVGGLEEVKTEILDTI  688 (953)
T ss_pred             chHHHHHHHHhhcccccchhccccccccccceecHHHHHHHHHHHHHhhhhhcCCCCCCccchhcccCHHHHHHHHHHHh
Confidence            73332   2111              013578999999999999999999999999999999999999999999999999


Q ss_pred             Hhh-----hhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEE
Q psy450          224 RGV-----NRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVV  297 (478)
Q Consensus       224 ~~~-----~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il  297 (478)
                      ..|     ++..|.+ ..|||||||||||||.+|+|+|.++...|+.|.+++++++|+|++++++|++|++|+..+||||
T Consensus       689 qlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMYVGqSE~NVR~VFerAR~A~PCVI  768 (953)
T KOG0736|consen  689 QLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYVGQSEENVREVFERARSAAPCVI  768 (953)
T ss_pred             cCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHHhcchHHHHHHHHHHhhccCCeEE
Confidence            997     4456666 7799999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC--CCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHH
Q psy450          298 FFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT--SQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRIS  375 (478)
Q Consensus       298 ~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~  375 (478)
                      |+||+|+++|+|+.+++++++++|++++|+.+||++.+  ..+++||++||+|+.|||+|+||||||+.+|+.++.+.+.
T Consensus       769 FFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFViGATNRPDLLDpALLRPGRFDKLvyvG~~~d~es  848 (953)
T KOG0736|consen  769 FFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVIGATNRPDLLDPALLRPGRFDKLVYVGPNEDAES  848 (953)
T ss_pred             EeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEEEecCCCccccChhhcCCCccceeEEecCCccHHH
Confidence            99999999999999999999999999999999999984  5689999999999999999999999999999999888999


Q ss_pred             HHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCC-------CCCCCccccHHHHHhc
Q psy450          376 QLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ-------VKSAPVIVTMDDFLGA  448 (478)
Q Consensus       376 r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~-------~~~~~~~it~~d~~~A  448 (478)
                      +..+|++..+++.++.++++.++|++|+..|||+|+.++|.+|++.|++|..+..+.       .......|+++||.+|
T Consensus       849 k~~vL~AlTrkFkLdedVdL~eiAk~cp~~~TGADlYsLCSdA~l~AikR~i~~ie~g~~~~~e~~~~~v~V~~eDflks  928 (953)
T KOG0736|consen  849 KLRVLEALTRKFKLDEDVDLVEIAKKCPPNMTGADLYSLCSDAMLAAIKRTIHDIESGTISEEEQESSSVRVTMEDFLKS  928 (953)
T ss_pred             HHHHHHHHHHHccCCCCcCHHHHHhhCCcCCchhHHHHHHHHHHHHHHHHHHHHhhhccccccccCCceEEEEHHHHHHH
Confidence            999999999999999999999999999999999999999999999999998764332       3456778999999999


Q ss_pred             hhccCCCccccccccccccc
Q psy450          449 CSLATAPDKFSQSVAPDNYS  468 (478)
Q Consensus       449 ~~~~~~l~~~~ps~~~~~~~  468 (478)
                            +++++||++..++-
T Consensus       929 ------~~~l~PSvS~~EL~  942 (953)
T KOG0736|consen  929 ------AKRLQPSVSEQELL  942 (953)
T ss_pred             ------HHhcCCcccHHHHH
Confidence                  99999999988764

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=100.00  E-value=1.7e-59  Score=508.54  Aligned_cols=424  Identities=33%  Similarity=0.557  Sum_probs=366.9

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCC
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQH   88 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~   88 (478)
                      +.++|++.... +++.+|+ .|....|+||||||+|+++++|          .++++++.||++            ...+
T Consensus       248 i~~~~~g~~~~-~l~~lf~-~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l------------~~~~  313 (733)
T TIGR01243       248 IMSKYYGESEE-RLREIFK-EAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGL------------KGRG  313 (733)
T ss_pred             HhcccccHHHH-HHHHHHH-HHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhcc------------ccCC
Confidence            34566666554 8999999 9999999999999999998764          577888888854            4456


Q ss_pred             cEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHH
Q psy450           89 KKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVR  159 (478)
Q Consensus        89 ~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~  159 (478)
                      .|+|||       +|++++|  ||++.++++.|+.++|.+||+.+.+.+  ++..+.++ +.+++.|+||+|+|+..+++
T Consensus       314 ~vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~--~l~~d~~l-~~la~~t~G~~gadl~~l~~  390 (733)
T TIGR01243       314 RVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNM--PLAEDVDL-DKLAEVTHGFVGADLAALAK  390 (733)
T ss_pred             CEEEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCC--CCccccCH-HHHHHhCCCCCHHHHHHHHH
Confidence            788887       9999999  999999999999999999999988877  55667777 99999999999999999999


Q ss_pred             HHHHHHHHhhc----------------CCCCCCCHHHHHHHHHHhhhhcccCCCCCCCCCCCcccccCcHHHHHHHHHHH
Q psy450          160 LSVKNKMLKQG----------------INKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTF  223 (478)
Q Consensus       160 ~a~~~a~~~~~----------------~~~~~it~~d~~~a~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~  223 (478)
                      +|+..++.+..                .....++.+||..++..+.|+..... ....|..+|++++|++.+|+.|.+.+
T Consensus       391 ~a~~~al~r~~~~~~~~~~~~~i~~~~~~~~~v~~~df~~Al~~v~ps~~~~~-~~~~~~~~~~di~g~~~~k~~l~~~v  469 (733)
T TIGR01243       391 EAAMAALRRFIREGKINFEAEEIPAEVLKELKVTMKDFMEALKMVEPSAIREV-LVEVPNVRWSDIGGLEEVKQELREAV  469 (733)
T ss_pred             HHHHHHHHHHhhccccccccccccchhcccccccHHHHHHHHhhccccccchh-hccccccchhhcccHHHHHHHHHHHH
Confidence            99998865411                12346889999999999988765443 34578899999999999999999999


Q ss_pred             Hhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeE
Q psy450          224 RGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCV  296 (478)
Q Consensus       224 ~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~i  296 (478)
                      .++..      ..+.. ++++|||||||||||++|+++|++++.+|+.++++++.++|+|+++..++.+|..|+...|||
T Consensus       470 ~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~vGese~~i~~~f~~A~~~~p~i  549 (733)
T TIGR01243       470 EWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAI  549 (733)
T ss_pred             HhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhcccCcHHHHHHHHHHHHHhcCCEE
Confidence            88732      23444 889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHH
Q psy450          297 VFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQ  376 (478)
Q Consensus       297 l~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r  376 (478)
                      |||||+|.+++.++... .....++++++|+.+|+++....+++||+|||+|+.+|++++|||||+..+++++ |+.++|
T Consensus       550 ifiDEid~l~~~r~~~~-~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~-Pd~~~R  627 (733)
T TIGR01243       550 IFFDEIDAIAPARGARF-DTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPP-PDEEAR  627 (733)
T ss_pred             EEEEChhhhhccCCCCC-CccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCC-cCHHHH
Confidence            99999999998875432 3345678999999999998888899999999999999999999999999999998 799999


Q ss_pred             HHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCC--------CCCCCccccHHHHHhc
Q psy450          377 LGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ--------VKSAPVIVTMDDFLGA  448 (478)
Q Consensus       377 ~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~--------~~~~~~~it~~d~~~A  448 (478)
                      .+||+.+.++.++..++++..+|..+ +||||+||.++|++|+..|+++.......        .......||++||.+|
T Consensus       628 ~~i~~~~~~~~~~~~~~~l~~la~~t-~g~sgadi~~~~~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~a  706 (733)
T TIGR01243       628 KEIFKIHTRSMPLAEDVDLEELAEMT-EGYTGADIEAVCREAAMAALRESIGSPAKEKLEVGEEEFLKDLKVEMRHFLEA  706 (733)
T ss_pred             HHHHHHHhcCCCCCccCCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHHHhhhccchhhhcccccccccCcccHHHHHHH
Confidence            99999999999999999999999987 89999999999999999999987543211        0122457999999999


Q ss_pred             hhccCCCcccccccccccccc
Q psy450          449 CSLATAPDKFSQSVAPDNYSL  469 (478)
Q Consensus       449 ~~~~~~l~~~~ps~~~~~~~~  469 (478)
                            +++++||++++++..
T Consensus       707 ------l~~~~ps~~~~~~~~  721 (733)
T TIGR01243       707 ------LKKVKPSVSKEDMLR  721 (733)
T ss_pred             ------HHHcCCCCCHHHHHH
Confidence                  999999999877543

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.

>KOG0735|consensus

Probab=100.00  E-value=2.3e-55  Score=439.92  Aligned_cols=386  Identities=34%  Similarity=0.559  Sum_probs=334.8

Q ss_pred             cchhhhhHHHHhhhhcCCCeEEEecccccccch--------h----hHhhhccccccccccccchhhhccCCCcEEEEe-
Q psy450           28 RYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK--------Y----VYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-   94 (478)
Q Consensus        28 ~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r--------~----~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-   94 (478)
                      .++.|+.+|. .+-.++|+|+++|+.|+|++..        +    ++.+++++-.          .-...+..|.||| 
T Consensus       479 iQk~l~~vfs-e~~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~----------~y~~~~~~ia~Iat  547 (952)
T KOG0735|consen  479 IQKFLNNVFS-EALWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIK----------IYLKRNRKIAVIAT  547 (952)
T ss_pred             HHHHHHHHHH-HHHhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHH----------HHHccCcEEEEEEe
Confidence            4567888999 9999999999999999999832        1    2222222111          1113455578998 


Q ss_pred             ------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHH
Q psy450           95 ------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKM  166 (478)
Q Consensus        95 ------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~  166 (478)
                            ++|-|-.  +|+.++.++.|+..+|.+||+..+++.  ......+.++-++..|+||..-|+..++.+|...+.
T Consensus       548 ~qe~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~--~~~~~~~dLd~ls~~TEGy~~~DL~ifVeRai~~a~  625 (952)
T KOG0735|consen  548 GQELQTLNPLLVSPLLFQIVIALPAPAVTRRKEILTTIFSKN--LSDITMDDLDFLSVKTEGYLATDLVIFVERAIHEAF  625 (952)
T ss_pred             chhhhhcChhhcCccceEEEEecCCcchhHHHHHHHHHHHhh--hhhhhhHHHHHHHHhcCCccchhHHHHHHHHHHHHH
Confidence                  8888876  899999999999999999999999764  222233334779999999999999999999999987


Q ss_pred             HhhcC-CCCCCCHHHHHHHHHHhhhhcccCCCCCCCCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEE
Q psy450          167 LKQGI-NKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLL  238 (478)
Q Consensus       167 ~~~~~-~~~~it~~d~~~a~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iL  238 (478)
                      .+... ...-++.++|.++++.+.|...+...........|++++|+.++|+.|.+.+.||..      ..+.+ +.|||
T Consensus       626 leris~~~klltke~f~ksL~~F~P~aLR~ik~~k~tgi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giL  705 (952)
T KOG0735|consen  626 LERISNGPKLLTKELFEKSLKDFVPLALRGIKLVKSTGIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGIL  705 (952)
T ss_pred             HHHhccCcccchHHHHHHHHHhcChHHhhhccccccCCCCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceE
Confidence            44222 223789999999999999998887766666669999999999999999999999832      33444 78999


Q ss_pred             EeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchh
Q psy450          239 LYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGV  318 (478)
Q Consensus       239 l~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~  318 (478)
                      ||||||||||++|.++|..++.+|+.+.+++++++|+|.+++++|++|.+|+..+|||+|+||+|+++|+|+.  ++.++
T Consensus       706 LyGppGcGKT~la~a~a~~~~~~fisvKGPElL~KyIGaSEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGh--DsTGV  783 (952)
T KOG0735|consen  706 LYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKYIGASEQNVRDLFERAQSAKPCILFFDEFDSIAPKRGH--DSTGV  783 (952)
T ss_pred             EECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHHhcccHHHHHHHHHHhhccCCeEEEeccccccCcccCC--CCCCc
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999964  66788


Q ss_pred             HHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHH
Q psy450          319 MDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSL  398 (478)
Q Consensus       319 ~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~l  398 (478)
                      .++++++++.+|||...-.+|.|+++|.+|+.+||+++||||+|+.+++++ |++.+|.+|++.+...+....+++++-+
T Consensus       784 TDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~-P~~~eRl~il~~ls~s~~~~~~vdl~~~  862 (952)
T KOG0735|consen  784 TDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPL-PDEPERLEILQVLSNSLLKDTDVDLECL  862 (952)
T ss_pred             hHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCCccceeeeCCC-CCcHHHHHHHHHHhhccCCccccchHHH
Confidence            899999999999999988999999999999999999999999999999998 7999999999999998999999999999


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          399 VHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       399 a~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      |.++ +||||+|+..++..|.+.|+.+..+..
T Consensus       863 a~~T-~g~tgADlq~ll~~A~l~avh~~l~~~  893 (952)
T KOG0735|consen  863 AQKT-DGFTGADLQSLLYNAQLAAVHEILKRE  893 (952)
T ss_pred             hhhc-CCCchhhHHHHHHHHHHHHHHHHHHhc
Confidence            9987 999999999999999999999987654

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=9.9e-52  Score=430.77  Aligned_cols=404  Identities=35%  Similarity=0.518  Sum_probs=356.0

Q ss_pred             HHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCCc
Q psy450           20 LTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQHK   89 (478)
Q Consensus        20 ~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~   89 (478)
                      +++|++.... +++.+|. .++..+|+|+|+||+|++++.+          ++.+++..||++            .... 
T Consensus        54 ~~~~~~~~~~-~~~~~~~-~a~~~~~~ii~~d~~~~~~~~~~~~~~~~~~~v~~~l~~~~d~~------------~~~~-  118 (494)
T COG0464          54 LSKYVGESEL-RLRELFE-EAEKLAPSIIFIDEIDALAPKRSSDQGEVERRVVAQLLALMDGL------------KRGQ-  118 (494)
T ss_pred             hhhhhhHHHH-HHHHHHH-HHHHhCCCeEeechhhhcccCccccccchhhHHHHHHHHhcccc------------cCCc-
Confidence            4455555554 8999999 9999999999999999999987          477888888864            3334 


Q ss_pred             EEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHH
Q psy450           90 KKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRL  160 (478)
Q Consensus        90 v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~  160 (478)
                      |++++       +|++++|  ||++.+.+..|+...|.+|+......+  ....+.+. +.++..+.|++++++..++.+
T Consensus       119 v~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ei~~~~~~~~--~~~~~~~~-~~~a~~~~~~~~~~~~~l~~~  195 (494)
T COG0464         119 VIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDEAGRLEILQIHTRLM--FLGPPGTG-KTLAARTVGKSGADLGALAKE  195 (494)
T ss_pred             eEEEeecCCccccChhHhCccccceeeecCCCCHHHHHHHHHHHHhcC--CCcccccH-HHHHHhcCCccHHHHHHHHHH
Confidence            77777       9999999  999999999999999999999999877  55556676 999999999999999999999


Q ss_pred             HHHHHHHhh---cCCCCCCCHHHHHHHHHHhhhhcccCCCCCCCCCCCcccccCcHHHHHHHHHHHHhhhhhC------C
Q psy450          161 SVKNKMLKQ---GINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTS------G  231 (478)
Q Consensus       161 a~~~a~~~~---~~~~~~it~~d~~~a~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~------~  231 (478)
                      +......+.   ......++.+|+..+++.+.++   .......|.++|++++|++.+|+.+++.+.++...+      +
T Consensus       196 ~~~~~~~r~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~  272 (494)
T COG0464         196 AALRELRRAIDLVGEYIGVTEDDFEEALKKVLPS---RGVLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLG  272 (494)
T ss_pred             HHHHHHHhhhccCcccccccHHHHHHHHHhcCcc---cccccCCCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcC
Confidence            998887653   2456778999999999999876   223556789999999999999999999999984332      3


Q ss_pred             CC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCC
Q psy450          232 LK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRG  310 (478)
Q Consensus       232 ~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~  310 (478)
                      .. +.++||+||||||||++|+++|++++.+|+.+..+++.++|+|+++++++.+|..|+..+||||||||+|++.+.++
T Consensus       273 ~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~sk~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~  352 (494)
T COG0464         273 LRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRG  352 (494)
T ss_pred             CCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhccccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCC
Confidence            44 77999999999999999999999999999999999999999999999999999999999999999999999999886


Q ss_pred             CCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCC-
Q psy450          311 QEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKL-  389 (478)
Q Consensus       311 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~-  389 (478)
                      .+....  ..+++++++.+|++.....+|+||++||+|+.+|++++|||||+..+++++ |+.++|.+|++.+++.... 
T Consensus       353 ~~~~~~--~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~-pd~~~r~~i~~~~~~~~~~~  429 (494)
T COG0464         353 PSEDGS--GRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPL-PDLEERLEIFKIHLRDKKPP  429 (494)
T ss_pred             CCCchH--HHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCC-CCHHHHHHHHHHHhcccCCc
Confidence            544333  268999999999999999999999999999999999999999999999997 7999999999999986554 


Q ss_pred             -CCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchhccCCCcccccccc
Q psy450          390 -SDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVA  463 (478)
Q Consensus       390 -~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~  463 (478)
                       ..++++..+++.+ +||+|+||..+|++|.+.++++..         ...+|.+||..|      +++++|+++
T Consensus       430 ~~~~~~~~~l~~~t-~~~sgadi~~i~~ea~~~~~~~~~---------~~~~~~~~~~~a------~~~~~p~~~  488 (494)
T COG0464         430 LAEDVDLEELAEIT-EGYSGADIAALVREAALEALREAR---------RREVTLDDFLDA------LKKIKPSVT  488 (494)
T ss_pred             chhhhhHHHHHHHh-cCCCHHHHHHHHHHHHHHHHHHhc---------cCCccHHHHHHH------HHhcCCCCC
Confidence             5788999999976 899999999999999999999873         457999999999      999999986

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

Probab=100.00  E-value=6.3e-51  Score=381.94  Aligned_cols=245  Identities=41%  Similarity=0.656  Sum_probs=226.8

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhh------hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVN------RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~------~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ....|.+++++++|++++++++++.+..|+      ...|.. |+|+|||||||||||.||+|+|+..++.|+.+.++++
T Consensus       142 v~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSEl  221 (406)
T COG1222         142 VEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSEL  221 (406)
T ss_pred             eccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHH
Confidence            456799999999999999999999999984      345665 9999999999999999999999999999999999999


Q ss_pred             hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC-chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS-SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      +.+|+|+..+.++++|..|+.++||||||||||++..+|...+.+ ....++.+.+||++|||+...+++-||++||+++
T Consensus       222 VqKYiGEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D  301 (406)
T COG1222         222 VQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPD  301 (406)
T ss_pred             HHHHhccchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcc
Confidence            999999999999999999999999999999999999998655443 3366788999999999999999999999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      .|||+|+||||||+.|+||+ |+.+.|.+||+.+.+++++..+++++.+|+.+ +|+||+||+++|.+|.+.|+|+.   
T Consensus       302 ~LDPALLRPGR~DRkIEfpl-Pd~~gR~~Il~IHtrkM~l~~dvd~e~la~~~-~g~sGAdlkaictEAGm~AiR~~---  376 (406)
T COG1222         302 ILDPALLRPGRFDRKIEFPL-PDEEGRAEILKIHTRKMNLADDVDLELLARLT-EGFSGADLKAICTEAGMFAIRER---  376 (406)
T ss_pred             ccChhhcCCCcccceeecCC-CCHHHHHHHHHHHhhhccCccCcCHHHHHHhc-CCCchHHHHHHHHHHhHHHHHhc---
Confidence            99999999999999999998 79999999999999999999999999999987 89999999999999999999986   


Q ss_pred             CCCCCCCCccccHHHHHhchhccCCCccccc
Q psy450          430 APQVKSAPVIVTMDDFLGACSLATAPDKFSQ  460 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A~~~~~~l~~~~p  460 (478)
                             ...||++||.+|      .+++.-
T Consensus       377 -------R~~Vt~~DF~~A------v~KV~~  394 (406)
T COG1222         377 -------RDEVTMEDFLKA------VEKVVK  394 (406)
T ss_pred             -------cCeecHHHHHHH------HHHHHh
Confidence                   568999999999      665543

>CHL00195 ycf46 Ycf46; Provisional

Probab=100.00  E-value=1.1e-43  Score=361.77  Aligned_cols=375  Identities=24%  Similarity=0.357  Sum_probs=296.7

Q ss_pred             CCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe----eCHhHHhccccEEEeCCCCHHHHHHH
Q psy450           45 LDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----IRKQIQKLFLKTINVLPLTEPERRLL  120 (478)
Q Consensus        45 p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----ld~al~rRf~~~i~~~~P~~~~r~~i  120 (478)
                      |+|+++-+++-++..-.+...|..+-..          .......+++++    +++.|.+-+ ..+.+|+|+.+|+.++
T Consensus        82 ~~~~vl~d~h~~~~~~~~~r~l~~l~~~----------~~~~~~~~i~~~~~~~~p~el~~~~-~~~~~~lP~~~ei~~~  150 (489)
T CHL00195         82 PALFLLKDFNRFLNDISISRKLRNLSRI----------LKTQPKTIIIIASELNIPKELKDLI-TVLEFPLPTESEIKKE  150 (489)
T ss_pred             CcEEEEecchhhhcchHHHHHHHHHHHH----------HHhCCCEEEEEcCCCCCCHHHHhce-eEEeecCcCHHHHHHH
Confidence            7899999999998653333333222110          113455678888    777777644 7789999999999999


Q ss_pred             HHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhcccC-CCCC
Q psy450          121 IQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQ-LDAP  199 (478)
Q Consensus       121 l~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~~~~-~~~~  199 (478)
                      ++.+....  ....+.+.++.+++.+.|+|-.+++.++..+...        ...++.+++...++......... .-..
T Consensus       151 l~~~~~~~--~~~~~~~~~~~l~~~~~gls~~~~~~~~~~~~~~--------~~~~~~~~~~~i~~~k~q~~~~~~~le~  220 (489)
T CHL00195        151 LTRLIKSL--NIKIDSELLENLTRACQGLSLERIRRVLSKIIAT--------YKTIDENSIPLILEEKKQIISQTEILEF  220 (489)
T ss_pred             HHHHHHhc--CCCCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHH--------cCCCChhhHHHHHHHHHHHHhhhccccc
Confidence            98888654  2334444459999999999999999998875432        23466666554444433222221 1122


Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhh---hhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGV---NRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYI  275 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~---~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~  275 (478)
                      ..+..+|++++|++.+|+.+.+.....   ....|.+ |+|+||+||||||||++|+++|++++.+++.++++.+.+++.
T Consensus       221 ~~~~~~~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~v  300 (489)
T CHL00195        221 YSVNEKISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIV  300 (489)
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhccccc
Confidence            236788999999999999998755433   2344555 899999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccc
Q psy450          276 GQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAI  355 (478)
Q Consensus       276 g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l  355 (478)
                      |+++..++++|..++..+||||||||+|.++..+...+ .++...+++.+++..|+.  ...+++||+|||+++.+|+++
T Consensus       301 Gese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~-d~~~~~rvl~~lL~~l~~--~~~~V~vIaTTN~~~~Ld~al  377 (489)
T CHL00195        301 GESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKG-DSGTTNRVLATFITWLSE--KKSPVFVVATANNIDLLPLEI  377 (489)
T ss_pred             ChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCC-CchHHHHHHHHHHHHHhc--CCCceEEEEecCChhhCCHHH
Confidence            99999999999999999999999999999987543322 344567889999999884  456799999999999999999


Q ss_pred             cCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC--CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCC
Q psy450          356 LRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS--DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQV  433 (478)
Q Consensus       356 ~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~--~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~  433 (478)
                      +|+||||..+++++ |+.++|.+||+.++++....  .+.++..++..+ +||||+||.++|.+|+..|+.+        
T Consensus       378 lR~GRFD~~i~v~l-P~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T-~GfSGAdI~~lv~eA~~~A~~~--------  447 (489)
T CHL00195        378 LRKGRFDEIFFLDL-PSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLS-NKFSGAEIEQSIIEAMYIAFYE--------  447 (489)
T ss_pred             hCCCcCCeEEEeCC-cCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhc-CCCCHHHHHHHHHHHHHHHHHc--------
Confidence            99999999999998 69999999999999886533  478899999987 8999999999999999888754        


Q ss_pred             CCCCccccHHHHHhchhccCCCccccccc
Q psy450          434 KSAPVIVTMDDFLGACSLATAPDKFSQSV  462 (478)
Q Consensus       434 ~~~~~~it~~d~~~A~~~~~~l~~~~ps~  462 (478)
                         ...+|.+||..|      ++++.|+.
T Consensus       448 ---~~~lt~~dl~~a------~~~~~Pls  467 (489)
T CHL00195        448 ---KREFTTDDILLA------LKQFIPLA  467 (489)
T ss_pred             ---CCCcCHHHHHHH------HHhcCCCc
Confidence               346999999999      99999973

>KOG0738|consensus

Probab=100.00  E-value=3.4e-45  Score=345.22  Aligned_cols=258  Identities=38%  Similarity=0.568  Sum_probs=230.0

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhh----hhCCC--CCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVN----RTSGL--KRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~----~~~~~--~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      ...|++.|+||.|+.++|+.|++.+..|.    ...|.  +-+|+|++||||||||+||+|+|.+++..|+.|+.+.+.+
T Consensus       204 ~~np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltS  283 (491)
T KOG0738|consen  204 QRNPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTS  283 (491)
T ss_pred             ccCCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhh
Confidence            35788999999999999999999998872    22232  2679999999999999999999999999999999999999


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCC----CCeEEEEEcCCC
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTS----QDVFILGATNRV  348 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~----~~v~vI~ttn~~  348 (478)
                      +|-|++++.++-+|+.|+..+|++|||||||+|+.+|++++.+ +..+++.++||.+|||+...    ..|+|+++||.|
T Consensus       284 KwRGeSEKlvRlLFemARfyAPStIFiDEIDslcs~RG~s~EH-EaSRRvKsELLvQmDG~~~t~e~~k~VmVLAATN~P  362 (491)
T KOG0738|consen  284 KWRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSQRGGSSEH-EASRRVKSELLVQMDGVQGTLENSKVVMVLAATNFP  362 (491)
T ss_pred             hhccchHHHHHHHHHHHHHhCCceeehhhHHHHHhcCCCccch-hHHHHHHHHHHHHhhccccccccceeEEEEeccCCC
Confidence            9999999999999999999999999999999999999876443 45689999999999998653    238999999999


Q ss_pred             CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHh
Q psy450          349 DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIIT  428 (478)
Q Consensus       349 ~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~  428 (478)
                      |.||++++|  ||.+.|++|+ |+.+.|..+++..++...+.++++++.|++++ +||||+||.++|++|.+.++||.+.
T Consensus       363 WdiDEAlrR--RlEKRIyIPL-P~~~~R~~Li~~~l~~~~~~~~~~~~~lae~~-eGySGaDI~nvCreAsm~~mRR~i~  438 (491)
T KOG0738|consen  363 WDIDEALRR--RLEKRIYIPL-PDAEARSALIKILLRSVELDDPVNLEDLAERS-EGYSGADITNVCREASMMAMRRKIA  438 (491)
T ss_pred             cchHHHHHH--HHhhheeeeC-CCHHHHHHHHHHhhccccCCCCccHHHHHHHh-cCCChHHHHHHHHHHHHHHHHHHHh
Confidence            999999999  9999999999 69999999999999999999999999999998 9999999999999999999999875


Q ss_pred             cCCC-------CCCCCccccHHHHHhchhccCCCcccccccccccc
Q psy450          429 SAPQ-------VKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNY  467 (478)
Q Consensus       429 ~~~~-------~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~  467 (478)
                      ....       ......+++.+||..|      +++++||++.+++
T Consensus       439 g~~~~ei~~lakE~~~~pv~~~Dfe~A------l~~v~pSvs~~d~  478 (491)
T KOG0738|consen  439 GLTPREIRQLAKEEPKMPVTNEDFEEA------LRKVRPSVSAADL  478 (491)
T ss_pred             cCCcHHhhhhhhhccccccchhhHHHH------HHHcCcCCCHHHH
Confidence            4322       1223367999999999      9999999997665

>KOG0733|consensus

Probab=100.00  E-value=1.7e-43  Score=349.91  Aligned_cols=223  Identities=39%  Similarity=0.693  Sum_probs=206.1

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhh-----hhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhh
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGV-----NRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYI  275 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~-----~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~  275 (478)
                      ++++|.+++|+++...+|.+++...     +...|.. |+|+|||||||||||++|+++|.+++.||+.++.+++++.+.
T Consensus       185 snv~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvS  264 (802)
T KOG0733|consen  185 SNVSFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVS  264 (802)
T ss_pred             CCcchhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccC
Confidence            3779999999999999999988764     4455655 899999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCC----CCeEEEEEcCCCCCC
Q psy450          276 GQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTS----QDVFILGATNRVDLL  351 (478)
Q Consensus       276 g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~----~~v~vI~ttn~~~~l  351 (478)
                      |+++++++++|+.|....|||+||||||.+.++|..  .+-.-.++++.+|+..||++...    .+|+||++||+|+.|
T Consensus       265 GESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~--aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnRPDsl  342 (802)
T KOG0733|consen  265 GESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREE--AQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATNRPDSL  342 (802)
T ss_pred             cccHHHHHHHHHHHhccCCeEEEeecccccccchhh--HHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCCCCccc
Confidence            999999999999999999999999999999999854  33344579999999999998664    579999999999999


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHh
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIIT  428 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~  428 (478)
                      ||+|+|+||||+.|.+.. |++..|.+||+.+++++.++.++++..||+.+ .||.|+|+.++|.+|+..|++|.++
T Consensus       343 DpaLRRaGRFdrEI~l~v-P~e~aR~~IL~~~~~~lrl~g~~d~~qlA~lT-PGfVGADL~AL~~~Aa~vAikR~ld  417 (802)
T KOG0733|consen  343 DPALRRAGRFDREICLGV-PSETAREEILRIICRGLRLSGDFDFKQLAKLT-PGFVGADLMALCREAAFVAIKRILD  417 (802)
T ss_pred             CHHHhccccccceeeecC-CchHHHHHHHHHHHhhCCCCCCcCHHHHHhcC-CCccchhHHHHHHHHHHHHHHHHhh
Confidence            999999999999999999 69999999999999999999999999999987 7999999999999999999999875

>KOG0734|consensus

Probab=100.00  E-value=7.4e-43  Score=340.30  Aligned_cols=233  Identities=35%  Similarity=0.564  Sum_probs=216.0

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhh-----hhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhh
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGV-----NRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYI  275 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~-----~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~  275 (478)
                      .++.|+|+-|.+++|++|++++...     +.+.|-+ |+||||+||||||||.|||++|.+.+.||++..++++-..|+
T Consensus       299 ~nv~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~V  378 (752)
T KOG0734|consen  299 KNVTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFV  378 (752)
T ss_pred             cccccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhh
Confidence            4788999999999999999998876     2234444 999999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccc
Q psy450          276 GQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAI  355 (478)
Q Consensus       276 g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l  355 (478)
                      |...+.++++|..|+..+||||||||+|++.++|.....  .+.+..+++||.+|||+..+.+++||++||.|+.||++|
T Consensus       379 GvGArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~~--~y~kqTlNQLLvEmDGF~qNeGiIvigATNfpe~LD~AL  456 (752)
T KOG0734|consen  379 GVGARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSDQ--HYAKQTLNQLLVEMDGFKQNEGIIVIGATNFPEALDKAL  456 (752)
T ss_pred             cccHHHHHHHHHHHHhcCCeEEEEechhhhcccCCccHH--HHHHHHHHHHHHHhcCcCcCCceEEEeccCChhhhhHHh
Confidence            999999999999999999999999999999999865433  377899999999999999999999999999999999999


Q ss_pred             cCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCC
Q psy450          356 LRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKS  435 (478)
Q Consensus       356 ~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~  435 (478)
                      .||||||+++.+|. |+..-|.+||+.++.++....++|+.-||+.+ .||+|+||.++++.|+..|....         
T Consensus       457 ~RPGRFD~~v~Vp~-PDv~GR~eIL~~yl~ki~~~~~VD~~iiARGT-~GFsGAdLaNlVNqAAlkAa~dg---------  525 (752)
T KOG0734|consen  457 TRPGRFDRHVTVPL-PDVRGRTEILKLYLSKIPLDEDVDPKIIARGT-PGFSGADLANLVNQAALKAAVDG---------  525 (752)
T ss_pred             cCCCccceeEecCC-CCcccHHHHHHHHHhcCCcccCCCHhHhccCC-CCCchHHHHHHHHHHHHHHHhcC---------
Confidence            99999999999999 69999999999999999999999999999998 79999999999999999888764         


Q ss_pred             CCccccHHHHHhc
Q psy450          436 APVIVTMDDFLGA  448 (478)
Q Consensus       436 ~~~~it~~d~~~A  448 (478)
                       ...||+.|++.|
T Consensus       526 -a~~VtM~~LE~a  537 (752)
T KOG0734|consen  526 -AEMVTMKHLEFA  537 (752)
T ss_pred             -cccccHHHHhhh
Confidence             557999999999

>KOG0739|consensus

Probab=100.00  E-value=8.4e-42  Score=311.72  Aligned_cols=259  Identities=33%  Similarity=0.524  Sum_probs=225.6

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhh-----hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVN-----RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~-----~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ..+.|++.|+++.|++.+|+.|++.+..|.     +..+.. -++|||||||||||++||+++|.+.+..|+.|+.++++
T Consensus       124 v~EKPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLv  203 (439)
T KOG0739|consen  124 VREKPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV  203 (439)
T ss_pred             hccCCCCchhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHH
Confidence            456899999999999999999999988873     222222 57999999999999999999999999999999999999


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC-CCCeEEEEEcCCCCC
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT-SQDVFILGATNRVDL  350 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~v~vI~ttn~~~~  350 (478)
                      ++|.|++++.++++|+.|+.+.|+||||||||.+++.++  .+.+...+++..+|+.+|+|+.. +.+++|+++||-||.
T Consensus       204 SKWmGESEkLVknLFemARe~kPSIIFiDEiDslcg~r~--enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATNiPw~  281 (439)
T KOG0739|consen  204 SKWMGESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRS--ENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATNIPWV  281 (439)
T ss_pred             HHHhccHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCC--CCchHHHHHHHHHHHHhhhccccCCCceEEEecCCCchh
Confidence            999999999999999999999999999999999998874  34556678999999999999865 457999999999999


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      ||.+++|  ||+++||+|+ |+...|...++.++...+.. .+.++.+|+.++ +||+|+||.-++++|.+..+|+....
T Consensus       282 LDsAIRR--RFekRIYIPL-Pe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kT-eGySGsDisivVrDalmePvRkvqsA  357 (439)
T KOG0739|consen  282 LDSAIRR--RFEKRIYIPL-PEAHARARMFKLHLGDTPHVLTEQDFKELARKT-EGYSGSDISIVVRDALMEPVRKVQSA  357 (439)
T ss_pred             HHHHHHH--HhhcceeccC-CcHHHhhhhheeccCCCccccchhhHHHHHhhc-CCCCcCceEEEehhhhhhhHHHhhhh
Confidence            9999999  9999999999 69999999999888765532 356799999987 99999999999999999999997532


Q ss_pred             CCC------------------------------------CCCCCccccHHHHHhchhccCCCccccccccccccc
Q psy450          430 APQ------------------------------------VKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYS  468 (478)
Q Consensus       430 ~~~------------------------------------~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~  468 (478)
                      ...                                    ..--..+||+.||..+      +++.+|.++++|+.
T Consensus       358 thFk~v~~~s~~~~~~~lltpcspgd~ga~em~w~dv~~dkl~eP~vt~~D~~k~------l~~tkPTvn~~Dl~  426 (439)
T KOG0739|consen  358 THFKKVSGPSNPSEVDDLLTPCSPGDPGAIEMSWMDVPADKLLEPPVTMRDFLKS------LSRTKPTVNEDDLL  426 (439)
T ss_pred             hhhhccCCCCChhhhccccCCCCCCCcchhhhhhccCCHhhccCCCccHHHHHHH------HhhcCCCCCHHHHH
Confidence            100                                    0113567999999999      99999999998863

>KOG0727|consensus

Probab=100.00  E-value=2.5e-40  Score=295.70  Aligned_cols=239  Identities=41%  Similarity=0.666  Sum_probs=218.7

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhh------hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVN------RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~------~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ....|.+++.|++|++-+|+.+++.+..|+      ..-|.. |+|+|+|||||||||++++++|+.....|+.+.++++
T Consensus       146 ~~ekpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsef  225 (408)
T KOG0727|consen  146 PDEKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEF  225 (408)
T ss_pred             CCCCCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHH
Confidence            345689999999999999999999999883      344554 9999999999999999999999999999999999999


Q ss_pred             hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCC-CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED-QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      +.+|.|+...-++++|+.|+.++|+||||||+|.++.+|-..+ ......++++-+|+++|||+....++.||++||+.+
T Consensus       226 vqkylgegprmvrdvfrlakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~nvkvimatnrad  305 (408)
T KOG0727|consen  226 VQKYLGEGPRMVRDVFRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTNVKVIMATNRAD  305 (408)
T ss_pred             HHHHhccCcHHHHHHHHHHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccceEEEEecCccc
Confidence            9999999999999999999999999999999999998875433 333456788999999999999999999999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      .+||+++||||+|+.|+||+ |++.++.-++..+..++.+++++++++++.+- +..+|+||.++|++|.+.|++..   
T Consensus       306 tldpallrpgrldrkiefpl-pdrrqkrlvf~titskm~ls~~vdle~~v~rp-dkis~adi~aicqeagm~avr~n---  380 (408)
T KOG0727|consen  306 TLDPALLRPGRLDRKIEFPL-PDRRQKRLVFSTITSKMNLSDEVDLEDLVARP-DKISGADINAICQEAGMLAVREN---  380 (408)
T ss_pred             ccCHhhcCCccccccccCCC-CchhhhhhhHHhhhhcccCCcccCHHHHhcCc-cccchhhHHHHHHHHhHHHHHhc---
Confidence            99999999999999999998 69999999999999999999999999999875 89999999999999999999985   


Q ss_pred             CCCCCCCCccccHHHHHhc
Q psy450          430 APQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A  448 (478)
                             .-.+...||++|
T Consensus       381 -------ryvvl~kd~e~a  392 (408)
T KOG0727|consen  381 -------RYVVLQKDFEKA  392 (408)
T ss_pred             -------ceeeeHHHHHHH
Confidence                   557999999999

>KOG0728|consensus

Probab=100.00  E-value=1.7e-39  Score=290.11  Aligned_cols=239  Identities=37%  Similarity=0.653  Sum_probs=219.4

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhh------hhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGV------NRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~------~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ...+|..+++-++|++++++.+++.+..|      +...|.. |+|+|||||||||||.+|+++|+...+.|+.++++++
T Consensus       138 VeKvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgsel  217 (404)
T KOG0728|consen  138 VEKVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSEL  217 (404)
T ss_pred             hhhCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHH
Confidence            34578888999999999999999999987      3345666 9999999999999999999999999999999999999


Q ss_pred             hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC-chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS-SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      +.+|+|+...-++++|-.|+.++|+|||+||||++...|..++.. ....++..-+|++++||+....++-||.+||+.+
T Consensus       218 vqk~igegsrmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnrid  297 (404)
T KOG0728|consen  218 VQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRID  297 (404)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccc
Confidence            999999999999999999999999999999999999877543322 3345678889999999999999999999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      .+||+++||||+|+.|+||. |+.+.|.+|++.+-+++++....++..+|++. .|.+|+++..+|.+|.+.|+++-   
T Consensus       298 ild~allrpgridrkiefp~-p~e~ar~~ilkihsrkmnl~rgi~l~kiaekm-~gasgaevk~vcteagm~alrer---  372 (404)
T KOG0728|consen  298 ILDPALLRPGRIDRKIEFPP-PNEEARLDILKIHSRKMNLTRGINLRKIAEKM-PGASGAEVKGVCTEAGMYALRER---  372 (404)
T ss_pred             cccHhhcCCCcccccccCCC-CCHHHHHHHHHHhhhhhchhcccCHHHHHHhC-CCCccchhhhhhhhhhHHHHHHh---
Confidence            99999999999999999996 79999999999999999999999999999999 79999999999999999999886   


Q ss_pred             CCCCCCCCccccHHHHHhc
Q psy450          430 APQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A  448 (478)
                             ..++|++||+-|
T Consensus       373 -------rvhvtqedfema  384 (404)
T KOG0728|consen  373 -------RVHVTQEDFEMA  384 (404)
T ss_pred             -------hccccHHHHHHH
Confidence                   668999999999

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=100.00  E-value=1.1e-39  Score=292.83  Aligned_cols=242  Identities=33%  Similarity=0.532  Sum_probs=212.2

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHH---HhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhc
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTF---RGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIG  276 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~---~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g  276 (478)
                      ..++.+++|++|++.+|...+-++   ..|.......|+++|||||||||||++|+++|++.+.|++.++..++++.++|
T Consensus       114 ~~~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVG  193 (368)
T COG1223         114 IISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVG  193 (368)
T ss_pred             hhccccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhh
Confidence            457788999999999998866544   44444445569999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCcccc
Q psy450          277 QSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAIL  356 (478)
Q Consensus       277 ~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~  356 (478)
                      .....++++++.|+..+|||+||||+|.+.-.|.-+. --+...++++.||.+||++..+.+++.|++||+|+.||++++
T Consensus       194 dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQe-lRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~LD~aiR  272 (368)
T COG1223         194 DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQE-LRGDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAIR  272 (368)
T ss_pred             hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHH-hcccHHHHHHHHHHhccCcccCCceEEEeecCChhhcCHHHH
Confidence            9999999999999999999999999999986653222 122345789999999999999999999999999999999999


Q ss_pred             CCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHH-HHHHHHHHHHHHHHHhcCCCCCC
Q psy450          357 RPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIY-SICSNAWTRAIRRIITSAPQVKS  435 (478)
Q Consensus       357 ~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~-~l~~~a~~~a~~r~~~~~~~~~~  435 (478)
                      +  ||...|.|.+ |+.++|..|++.+++++++.-+.++..++.++ .|+||+||. .+++.|..+|+.+.         
T Consensus       273 s--RFEeEIEF~L-P~~eEr~~ile~y~k~~Plpv~~~~~~~~~~t-~g~SgRdikekvlK~aLh~Ai~ed---------  339 (368)
T COG1223         273 S--RFEEEIEFKL-PNDEERLEILEYYAKKFPLPVDADLRYLAAKT-KGMSGRDIKEKVLKTALHRAIAED---------  339 (368)
T ss_pred             h--hhhheeeeeC-CChHHHHHHHHHHHHhCCCccccCHHHHHHHh-CCCCchhHHHHHHHHHHHHHHHhc---------
Confidence            9  9999999999 69999999999999999999999999999997 899999986 56777778888775         


Q ss_pred             CCccccHHHHHhchhccCCCccccccc
Q psy450          436 APVIVTMDDFLGACSLATAPDKFSQSV  462 (478)
Q Consensus       436 ~~~~it~~d~~~A~~~~~~l~~~~ps~  462 (478)
                       ...|+.+||..|      +++.++.-
T Consensus       340 -~e~v~~edie~a------l~k~r~~r  359 (368)
T COG1223         340 -REKVEREDIEKA------LKKERKRR  359 (368)
T ss_pred             -hhhhhHHHHHHH------HHhhcccc
Confidence             457999999999      77655543

>KOG0731|consensus

Probab=100.00  E-value=5.7e-39  Score=332.01  Aligned_cols=238  Identities=37%  Similarity=0.628  Sum_probs=217.4

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhh-----hhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGV-----NRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~-----~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      ...+.+.|+|+.|.+++|++|.+++...     ....|.+ |+|+||+||||||||.||+|+|.+.+.||+.+++++++.
T Consensus       303 ~~~t~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE  382 (774)
T KOG0731|consen  303 EGNTGVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVE  382 (774)
T ss_pred             CCCCCCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHH
Confidence            4456689999999999999999998876     4566777 999999999999999999999999999999999999999


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCC--CCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQ--EDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~--~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                      .+.|.....++++|..|+...|||+||||||.+...+++  ....+..-+..+++|+.+||++.....|+|+++||+|+.
T Consensus       383 ~~~g~~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~  462 (774)
T KOG0731|consen  383 MFVGVGASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDI  462 (774)
T ss_pred             HhcccchHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCccc
Confidence            999999999999999999999999999999999998853  222333446789999999999999989999999999999


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      +|++++||||||+.+++++ |+...|..|++.++++.++. +++++..+|.++ .||+|+||.++|++|+..|.++.   
T Consensus       463 ld~allrpGRfdr~i~i~~-p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t-~gf~gadl~n~~neaa~~a~r~~---  537 (774)
T KOG0731|consen  463 LDPALLRPGRFDRQIQIDL-PDVKGRASILKVHLRKKKLDDEDVDLSKLASLT-PGFSGADLANLCNEAALLAARKG---  537 (774)
T ss_pred             cCHHhcCCCccccceeccC-CchhhhHHHHHHHhhccCCCcchhhHHHHHhcC-CCCcHHHHHhhhhHHHHHHHHhc---
Confidence            9999999999999999998 79999999999999999985 778899988887 79999999999999999999986   


Q ss_pred             CCCCCCCCccccHHHHHhc
Q psy450          430 APQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A  448 (478)
                             ...|+..||..|
T Consensus       538 -------~~~i~~~~~~~a  549 (774)
T KOG0731|consen  538 -------LREIGTKDLEYA  549 (774)
T ss_pred             -------cCccchhhHHHH
Confidence                   557999999999

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

Probab=100.00  E-value=3.5e-38  Score=315.21  Aligned_cols=246  Identities=37%  Similarity=0.634  Sum_probs=219.3

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ....|..+|++|+|++.+++.+.+.+..|..      ..|.. |+++||+||||||||++|+++|++++.+++.+.++++
T Consensus       136 ~~~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l  215 (398)
T PTZ00454        136 MSEKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEF  215 (398)
T ss_pred             ccCCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHH
Confidence            4457899999999999999999999987732      34544 8999999999999999999999999999999999999


Q ss_pred             hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCC-CchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ-SSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      ...|.|.++..++.+|..++...|+||||||+|.+.+++.+... ......+++.+++..++++....+++||++||+|+
T Consensus       216 ~~k~~ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d  295 (398)
T PTZ00454        216 VQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRAD  295 (398)
T ss_pred             HHHhcchhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCch
Confidence            99999999999999999999999999999999999877643222 22345678889999999987778899999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      .+|++++|+|||+..|++++ |+.++|..||+.++.+.++..++++.+++..+ +||||+||.++|++|.+.|+++.   
T Consensus       296 ~LDpAllR~GRfd~~I~~~~-P~~~~R~~Il~~~~~~~~l~~dvd~~~la~~t-~g~sgaDI~~l~~eA~~~A~r~~---  370 (398)
T PTZ00454        296 TLDPALLRPGRLDRKIEFPL-PDRRQKRLIFQTITSKMNLSEEVDLEDFVSRP-EKISAADIAAICQEAGMQAVRKN---  370 (398)
T ss_pred             hCCHHHcCCCcccEEEEeCC-cCHHHHHHHHHHHHhcCCCCcccCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHcC---
Confidence            99999999999999999997 79999999999999999999999999999987 89999999999999999999874   


Q ss_pred             CCCCCCCCccccHHHHHhchhccCCCcccccc
Q psy450          430 APQVKSAPVIVTMDDFLGACSLATAPDKFSQS  461 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps  461 (478)
                             ...|+++||.+|      ++++...
T Consensus       371 -------~~~i~~~df~~A------~~~v~~~  389 (398)
T PTZ00454        371 -------RYVILPKDFEKG------YKTVVRK  389 (398)
T ss_pred             -------CCccCHHHHHHH------HHHHHhc
Confidence                   458999999999      7665443

>KOG0726|consensus

Probab=100.00  E-value=1.4e-39  Score=296.36  Aligned_cols=238  Identities=37%  Similarity=0.645  Sum_probs=217.4

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhh------hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVN------RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~------~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ...|..++.|++|++.+++.+++.+..|+      ...|.+ |+|++|||+||||||.||+++|+...+.|+.+.+++++
T Consensus       177 eKaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLi  256 (440)
T KOG0726|consen  177 EKAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELI  256 (440)
T ss_pred             ccCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHH
Confidence            34578899999999999999999999883      345666 99999999999999999999999999999999999999


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC-chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS-SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                      .+|.|+..+.++++|+.|..++|+|+||||||.+..+|..+... ....++.+-+|++++|++...+.+-||.+||+.+.
T Consensus       257 QkylGdGpklvRqlF~vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFdsrgDvKvimATnrie~  336 (440)
T KOG0726|consen  257 QKYLGDGPKLVRELFRVAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIMATNRIET  336 (440)
T ss_pred             HHHhccchHHHHHHHHHHHhcCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCccccCCeEEEEecccccc
Confidence            99999999999999999999999999999999999888654332 23556777789999999999999999999999999


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      |||+|.||||+|+.|.|++ |+...+..||+.+..++.+..+++++++...- +.+||+||.++|.+|.+.|+|..    
T Consensus       337 LDPaLiRPGrIDrKIef~~-pDe~TkkkIf~IHTs~Mtl~~dVnle~li~~k-ddlSGAdIkAictEaGllAlRer----  410 (440)
T KOG0726|consen  337 LDPALIRPGRIDRKIEFPL-PDEKTKKKIFQIHTSRMTLAEDVNLEELIMTK-DDLSGADIKAICTEAGLLALRER----  410 (440)
T ss_pred             cCHhhcCCCccccccccCC-CchhhhceeEEEeecccchhccccHHHHhhcc-cccccccHHHHHHHHhHHHHHHH----
Confidence            9999999999999999999 69999999999999999999999999998755 88999999999999999999886    


Q ss_pred             CCCCCCCccccHHHHHhc
Q psy450          431 PQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       431 ~~~~~~~~~it~~d~~~A  448 (478)
                            .-.+|++||.+|
T Consensus       411 ------Rm~vt~~DF~ka  422 (440)
T KOG0726|consen  411 ------RMKVTMEDFKKA  422 (440)
T ss_pred             ------HhhccHHHHHHH
Confidence                  346999999999

>KOG0652|consensus

Probab=100.00  E-value=4e-39  Score=289.26  Aligned_cols=239  Identities=35%  Similarity=0.630  Sum_probs=219.1

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhh------hhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGV------NRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~------~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ....|...+++|+|++++++.|.+.+..|      +...|.. |+|+|+|||||||||.+||++|...+..|+.+.++.+
T Consensus       162 vDekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQL  241 (424)
T KOG0652|consen  162 VDEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQL  241 (424)
T ss_pred             eccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHH
Confidence            45568889999999999999999998877      3345665 8999999999999999999999999999999999999


Q ss_pred             hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCc-hhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSS-GVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~-~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      +..|+|...+.+++.|.-|+...|+||||||+|.+..+|..+...+ ...++.+-+|++++||+.+...+.||++||+.+
T Consensus       242 VQMfIGdGAkLVRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKviAATNRvD  321 (424)
T KOG0652|consen  242 VQMFIGDGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVIAATNRVD  321 (424)
T ss_pred             HhhhhcchHHHHHHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEEeeccccc
Confidence            9999999999999999999999999999999999998886554433 355677888999999999999999999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      .+||+++|.||+|+.|+||. |+.+.|..|++.+.+++.+.++++++++++-+ ++|+|+...++|-+|.+.|++|.   
T Consensus       322 iLDPALlRSGRLDRKIEfP~-Pne~aRarIlQIHsRKMnv~~DvNfeELaRsT-ddFNGAQcKAVcVEAGMiALRr~---  396 (424)
T KOG0652|consen  322 ILDPALLRSGRLDRKIEFPH-PNEEARARILQIHSRKMNVSDDVNFEELARST-DDFNGAQCKAVCVEAGMIALRRG---  396 (424)
T ss_pred             ccCHHHhhcccccccccCCC-CChHHHHHHHHHhhhhcCCCCCCCHHHHhhcc-cccCchhheeeehhhhHHHHhcc---
Confidence            99999999999999999999 69999999999999999999999999999865 99999999999999999999996   


Q ss_pred             CCCCCCCCccccHHHHHhc
Q psy450          430 APQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A  448 (478)
                             ...|+.+||.++
T Consensus       397 -------atev~heDfmeg  408 (424)
T KOG0652|consen  397 -------ATEVTHEDFMEG  408 (424)
T ss_pred             -------cccccHHHHHHH
Confidence                   557999999999

>KOG0737|consensus

Probab=100.00  E-value=4.4e-39  Score=304.16  Aligned_cols=260  Identities=36%  Similarity=0.546  Sum_probs=229.3

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCC--------CCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGL--------KRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPE  269 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~--------~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~  269 (478)
                      .+..-.++|+||+|++.+++.+++.+..|.+.++.        +++||||+||||||||.+|+++|++.|.+|+.|.++.
T Consensus        83 ~p~~I~v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~  162 (386)
T KOG0737|consen   83 PPSEIGVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSN  162 (386)
T ss_pred             chhhceeehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccc
Confidence            45556789999999999999999999988544322        3789999999999999999999999999999999999


Q ss_pred             hhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCC--eEEEEEcCC
Q psy450          270 LLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD--VFILGATNR  347 (478)
Q Consensus       270 l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~--v~vI~ttn~  347 (478)
                      +.+++.|++++.++.+|..|.+..||||||||+|.+.+.|.  ....+....+.++|+...||+..+.+  |+|+|+||+
T Consensus       163 lt~KWfgE~eKlv~AvFslAsKl~P~iIFIDEvds~L~~R~--s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATNR  240 (386)
T KOG0737|consen  163 LTSKWFGEAQKLVKAVFSLASKLQPSIIFIDEVDSFLGQRR--STDHEATAMMKNEFMALWDGLSSKDSERVLVLGATNR  240 (386)
T ss_pred             cchhhHHHHHHHHHHHHhhhhhcCcceeehhhHHHHHhhcc--cchHHHHHHHHHHHHHHhccccCCCCceEEEEeCCCC
Confidence            99999999999999999999999999999999999998883  33344567888999999999987665  999999999


Q ss_pred             CCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHH
Q psy450          348 VDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII  427 (478)
Q Consensus       348 ~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~  427 (478)
                      |..+|.+++|  |+...+++++ |+.++|.+||+.++++.++++++|+.++|..+ +||||+||.++|+.|+...++..+
T Consensus       241 P~DlDeAiiR--R~p~rf~V~l-P~~~qR~kILkviLk~e~~e~~vD~~~iA~~t-~GySGSDLkelC~~Aa~~~ire~~  316 (386)
T KOG0737|consen  241 PFDLDEAIIR--RLPRRFHVGL-PDAEQRRKILKVILKKEKLEDDVDLDEIAQMT-EGYSGSDLKELCRLAALRPIRELL  316 (386)
T ss_pred             CccHHHHHHH--hCcceeeeCC-CchhhHHHHHHHHhcccccCcccCHHHHHHhc-CCCcHHHHHHHHHHHhHhHHHHHH
Confidence            9999999999  9999999999 68999999999999999999999999999987 999999999999999999999988


Q ss_pred             hcC--C---CC-------------CCCCccccHHHHHhchhccCCCcccccccccccccc
Q psy450          428 TSA--P---QV-------------KSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSL  469 (478)
Q Consensus       428 ~~~--~---~~-------------~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~  469 (478)
                      .+.  .   +.             .....+++++||..|      +.++.++++.+...+
T Consensus       317 ~~~~~~~d~d~~~~d~~~~~~~~~~~~~r~l~~eDf~~a------~~~v~~~~~~~~t~~  370 (386)
T KOG0737|consen  317 VSETGLLDLDKAIADLKPTQAAASSCLLRPLEQEDFPKA------INRVSASVAMDATRM  370 (386)
T ss_pred             HhcccchhhhhhhhhccCCcccccccccCcccHHHHHHH------HHhhhhHHHHhhhhh
Confidence            764  1   10             112578999999999      888888866554443

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=100.00  E-value=4.3e-37  Score=309.16  Aligned_cols=250  Identities=44%  Similarity=0.687  Sum_probs=222.1

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ....|.++|++++|++++++.+.+.+..+..      ..|.. |+++||+||||||||++|+++|++++.+|+.++++++
T Consensus       122 ~~~~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l  201 (389)
T PRK03992        122 VIESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSEL  201 (389)
T ss_pred             ecCCCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHH
Confidence            4557889999999999999999999987733      23444 8899999999999999999999999999999999999


Q ss_pred             hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC-chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS-SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      ...|.|.++..++.+|..++...|+||||||+|.+.+.++..+.+ .....+.+.+++..++++....++.||+|||+++
T Consensus       202 ~~~~~g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~  281 (389)
T PRK03992        202 VQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRID  281 (389)
T ss_pred             hHhhccchHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChh
Confidence            999999999999999999999999999999999999776544332 2344567788888899887778999999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      .+|++++|||||+..+++++ |+.++|.+||+.++++..+..++++..++..+ +||+|+||.++|++|+..|+++.   
T Consensus       282 ~ld~allRpgRfd~~I~v~~-P~~~~R~~Il~~~~~~~~~~~~~~~~~la~~t-~g~sgadl~~l~~eA~~~a~~~~---  356 (389)
T PRK03992        282 ILDPAILRPGRFDRIIEVPL-PDEEGRLEILKIHTRKMNLADDVDLEELAELT-EGASGADLKAICTEAGMFAIRDD---  356 (389)
T ss_pred             hCCHHHcCCccCceEEEECC-CCHHHHHHHHHHHhccCCCCCcCCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHcC---
Confidence            99999999999999999997 79999999999999999988889999999987 89999999999999999998873   


Q ss_pred             CCCCCCCCccccHHHHHhchhccCCCcccccccccc
Q psy450          430 APQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPD  465 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~  465 (478)
                             ...||.+||.+|      +++++++...+
T Consensus       357 -------~~~i~~~d~~~A------~~~~~~~~~~~  379 (389)
T PRK03992        357 -------RTEVTMEDFLKA------IEKVMGKEEKD  379 (389)
T ss_pred             -------CCCcCHHHHHHH------HHHHhcccccc
Confidence                   456999999999      99998876554

>KOG0729|consensus

Probab=100.00  E-value=1.3e-37  Score=280.23  Aligned_cols=247  Identities=34%  Similarity=0.594  Sum_probs=221.5

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhh------hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVN------RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~------~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ....|.+++.|++|..++++.+++.+..|.      -..|.. |+|+|+|||||||||.+|+++|+..+..|+.+-++++
T Consensus       168 veekpdvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigsel  247 (435)
T KOG0729|consen  168 VEEKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSEL  247 (435)
T ss_pred             eecCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHH
Confidence            355689999999999999999999999883      234554 8999999999999999999999999999999999999


Q ss_pred             hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCC-CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED-QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      +.+|+|+...-++++|+.|+....||||+||+|.+.+.|-..+ ...+..++.+.+++.++|++...+++.|+.+||+|+
T Consensus       248 vqkyvgegarmvrelf~martkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikvlmatnrpd  327 (435)
T KOG0729|consen  248 VQKYVGEGARMVRELFEMARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVLMATNRPD  327 (435)
T ss_pred             HHHHhhhhHHHHHHHHHHhcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEEeecCCCC
Confidence            9999999999999999999999999999999999998774332 233455778888999999999999999999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      .|||+|+||||+|+.++|.+ |+.+-|..|++.+.+.+.+..+..++-+++.| .+-+|++|+.+|.+|.+.|++.-   
T Consensus       328 tldpallrpgrldrkvef~l-pdlegrt~i~kihaksmsverdir~ellarlc-pnstgaeirsvcteagmfairar---  402 (435)
T KOG0729|consen  328 TLDPALLRPGRLDRKVEFGL-PDLEGRTHIFKIHAKSMSVERDIRFELLARLC-PNSTGAEIRSVCTEAGMFAIRAR---  402 (435)
T ss_pred             CcCHhhcCCcccccceeccC-CcccccceeEEEeccccccccchhHHHHHhhC-CCCcchHHHHHHHHhhHHHHHHH---
Confidence            99999999999999999999 69999999999999999999999999999999 57899999999999999999865   


Q ss_pred             CCCCCCCCccccHHHHHhchhccCCCccccccc
Q psy450          430 APQVKSAPVIVTMDDFLGACSLATAPDKFSQSV  462 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~  462 (478)
                             ....|..||..|      +.++..++
T Consensus       403 -------rk~atekdfl~a------v~kvvkgy  422 (435)
T KOG0729|consen  403 -------RKVATEKDFLDA------VNKVVKGY  422 (435)
T ss_pred             -------hhhhhHHHHHHH------HHHHHHHH
Confidence                   336899999999      66665443

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=7.9e-37  Score=311.38  Aligned_cols=236  Identities=36%  Similarity=0.618  Sum_probs=216.2

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhh-----hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVN-----RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKY  274 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~-----~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~  274 (478)
                      ...+.|.|+.|.+++|+.+.+.+....     ...|.+ |+|++|+||||||||++|+++|.+.+.||+.+++++++..+
T Consensus       144 ~~~v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemf  223 (596)
T COG0465         144 QVKVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF  223 (596)
T ss_pred             ccCcChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhh
Confidence            567889999999999999999988763     233555 99999999999999999999999999999999999999999


Q ss_pred             hcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCC-CCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCc
Q psy450          275 IGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE-DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDP  353 (478)
Q Consensus       275 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~-~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~  353 (478)
                      +|...+.+|++|.+|++.+|||+||||+|.+...|+.+ +.....-+..+++++.+||++..+..++|+++||+|+.+|+
T Consensus       224 VGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gviviaaTNRpdVlD~  303 (596)
T COG0465         224 VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAATNRPDVLDP  303 (596)
T ss_pred             cCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEEecCCCcccchH
Confidence            99999999999999999999999999999999888543 22333445789999999999998889999999999999999


Q ss_pred             cccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCC
Q psy450          354 AILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQV  433 (478)
Q Consensus       354 ~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~  433 (478)
                      +|+||||||+.+.++. |+-..|+.|++.+.++.++..++++..+|+.+ .||+|+|+.+++++|+..|.++.       
T Consensus       304 ALlRpgRFDRqI~V~~-PDi~gRe~IlkvH~~~~~l~~~Vdl~~iAr~t-pGfsGAdL~nl~NEAal~aar~n-------  374 (596)
T COG0465         304 ALLRPGRFDRQILVEL-PDIKGREQILKVHAKNKPLAEDVDLKKIARGT-PGFSGADLANLLNEAALLAARRN-------  374 (596)
T ss_pred             hhcCCCCcceeeecCC-cchhhHHHHHHHHhhcCCCCCcCCHHHHhhhC-CCcccchHhhhHHHHHHHHHHhc-------
Confidence            9999999999999999 69999999999999999999999999999887 79999999999999999999986       


Q ss_pred             CCCCccccHHHHHhc
Q psy450          434 KSAPVIVTMDDFLGA  448 (478)
Q Consensus       434 ~~~~~~it~~d~~~A  448 (478)
                         ...|++.||.+|
T Consensus       375 ---~~~i~~~~i~ea  386 (596)
T COG0465         375 ---KKEITMRDIEEA  386 (596)
T ss_pred             ---CeeEeccchHHH
Confidence               567999999999

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

Probab=100.00  E-value=4.5e-36  Score=301.58  Aligned_cols=243  Identities=37%  Similarity=0.617  Sum_probs=215.4

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ...|..+|++|+|++.+++.+.+.+..+..      ..|.. +.++||+||||||||++|+++|++++.+++.+.++++.
T Consensus       175 ~~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~  254 (438)
T PTZ00361        175 DKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELI  254 (438)
T ss_pred             ccCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhh
Confidence            456889999999999999999999987643      23444 88999999999999999999999999999999999999


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCC-CchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ-SSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                      +.|.|..+..++.+|..|....|+||||||+|.+..++..... ......+.+.+++..++++....++.||++||+++.
T Consensus       255 ~k~~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~  334 (438)
T PTZ00361        255 QKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIES  334 (438)
T ss_pred             hhhcchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHH
Confidence            9999999999999999999999999999999999977643322 222345677888999998877778999999999999


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      +|++++|+|||+..|++++ |+.++|.+||+.++.++.+..++++..++..+ +||+|+||.++|++|++.|+++.    
T Consensus       335 LDpaLlRpGRfd~~I~~~~-Pd~~~R~~Il~~~~~k~~l~~dvdl~~la~~t-~g~sgAdI~~i~~eA~~~Alr~~----  408 (438)
T PTZ00361        335 LDPALIRPGRIDRKIEFPN-PDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAK-DELSGADIKAICTEAGLLALRER----  408 (438)
T ss_pred             hhHHhccCCeeEEEEEeCC-CCHHHHHHHHHHHHhcCCCCcCcCHHHHHHhc-CCCCHHHHHHHHHHHHHHHHHhc----
Confidence            9999999999999999997 79999999999999999999999999999987 89999999999999999999875    


Q ss_pred             CCCCCCCccccHHHHHhchhccCCCcccc
Q psy450          431 PQVKSAPVIVTMDDFLGACSLATAPDKFS  459 (478)
Q Consensus       431 ~~~~~~~~~it~~d~~~A~~~~~~l~~~~  459 (478)
                            ...||++||.+|      ++++.
T Consensus       409 ------r~~Vt~~D~~~A------~~~v~  425 (438)
T PTZ00361        409 ------RMKVTQADFRKA------KEKVL  425 (438)
T ss_pred             ------CCccCHHHHHHH------HHHHH
Confidence                  457999999999      66653

>KOG0741|consensus

Probab=100.00  E-value=8.4e-36  Score=290.84  Aligned_cols=341  Identities=18%  Similarity=0.306  Sum_probs=246.0

Q ss_pred             HHHhhccCccchhhhhHHHHhhhh--------cCCCeEEEecccccccch------------hhHhhhcccccccccccc
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKK--------YNLDIFKYDEVNYLCNVK------------YVYFKLCSFDSVNVKSNE   78 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~--------~~p~ilfiDe~d~i~~~r------------~~~~~l~~~d~~~~~~~~   78 (478)
                      +|++|-|++++ ++|++|. +|.+        -.-.||+|||||+||+.|            +||+||+.||++      
T Consensus       293 IL~KYVGeSE~-NvR~LFa-DAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGV------  364 (744)
T KOG0741|consen  293 ILNKYVGESEE-NVRKLFA-DAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGV------  364 (744)
T ss_pred             HHHHhhcccHH-HHHHHHH-hHHHHHHhhCccCCceEEEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccH------
Confidence            45566666666 9999999 7753        235799999999999988            899999999954      


Q ss_pred             chhhhccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcC--CCCCCChhHHHHHHHhcC
Q psy450           79 TKDQQCKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLG--GDYGFDASLVEYLSSVTS  147 (478)
Q Consensus        79 ~~~~~~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~--~~~~~~~~~i~~la~~t~  147 (478)
                            +.-++|+|||       ||+||+|  ||.-.+++.+||+..|.+|++.+++++.  ..++.++|+ ++||.+|.
T Consensus       365 ------eqLNNILVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~rMre~~~l~~dVdl-~elA~lTK  437 (744)
T KOG0741|consen  365 ------EQLNNILVIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKIHTKRMRENNKLSADVDL-KELAALTK  437 (744)
T ss_pred             ------HhhhcEEEEeccCchhhHHHHhcCCCceEEEEEEeCCCccCceEEEEhhhhhhhhcCCCCCCcCH-HHHHHHhc
Confidence                  7778899999       9999999  9999999999999999999999998864  346788998 99999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhh------------cCCCCCCCHHHHHHHHHHhhhhcccCCCCCCCCCCCcccccCc-HH
Q psy450          148 GFERHDLTCLVRLSVKNKMLKQ------------GINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGL-SK  214 (478)
Q Consensus       148 G~s~~di~~l~~~a~~~a~~~~------------~~~~~~it~~d~~~a~~~~~~~~~~~~~~~~~~~~~~~~i~g~-~~  214 (478)
                      +|||++|+.+++.|...|+.+.            ..++.+++..||..|+.+++|++......  ....-...++-. ..
T Consensus       438 NfSGAEleglVksA~S~A~nR~vk~~~~~~~~~~~~e~lkV~r~DFl~aL~dVkPAFG~see~--l~~~~~~Gmi~~g~~  515 (744)
T KOG0741|consen  438 NFSGAELEGLVKSAQSFAMNRHVKAGGKVEVDPVAIENLKVTRGDFLNALEDVKPAFGISEED--LERFVMNGMINWGPP  515 (744)
T ss_pred             CCchhHHHHHHHHHHHHHHHhhhccCcceecCchhhhheeecHHHHHHHHHhcCcccCCCHHH--HHHHHhCCceeeccc
Confidence            9999999999999999887652            23567899999999999999886542110  000000001111 11


Q ss_pred             HHHHHHH---HHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechh-hhhhhhcchHHHHHHHHHHhH
Q psy450          215 LKAEILS---TFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPE-LLNKYIGQSEENIRNVFLKAR  290 (478)
Q Consensus       215 ~k~~l~~---~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~-l~~~~~g~~~~~~~~~~~~a~  290 (478)
                      +-+-+.+   ++.........+-.++||+||||+|||+||-.+|...+.||+.+-.++ +++..-......+..+|+.|.
T Consensus       516 v~~il~~G~llv~qvk~s~~s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAY  595 (744)
T KOG0741|consen  516 VTRILDDGKLLVQQVKNSERSPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAY  595 (744)
T ss_pred             HHHHHhhHHHHHHHhhccccCcceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhh
Confidence            1111111   122222222222567999999999999999999999999999775543 332212222335789999999


Q ss_pred             hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCC-CeEEEEEcCCCCCCCc-cccCCCCCCeEEEeC
Q psy450          291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQ-DVFILGATNRVDLLDP-AILRPGRLDKSLYVG  368 (478)
Q Consensus       291 ~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-~v~vI~ttn~~~~ld~-~l~~~~Rf~~~i~~~  368 (478)
                      +..-+||++|+++.|..-..-+..   +...++.+|+..+....+.+ +.+|++||++.+.|.. .+..  .|+..+.+|
T Consensus       596 kS~lsiivvDdiErLiD~vpIGPR---fSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~--~F~~~i~Vp  670 (744)
T KOG0741|consen  596 KSPLSIIVVDDIERLLDYVPIGPR---FSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILD--CFSSTIHVP  670 (744)
T ss_pred             cCcceEEEEcchhhhhcccccCch---hhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHH--hhhheeecC
Confidence            999899999999998743322222   23456777777776654443 6788888887654432 3445  888999997


Q ss_pred             CCCCHHHHHHHHH
Q psy450          369 LYEDRISQLGVLK  381 (478)
Q Consensus       369 ~pp~~~~r~~il~  381 (478)
                      .-.+.++..+++.
T Consensus       671 nl~~~~~~~~vl~  683 (744)
T KOG0741|consen  671 NLTTGEQLLEVLE  683 (744)
T ss_pred             ccCchHHHHHHHH
Confidence            7444456555554

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=100.00  E-value=3.3e-35  Score=305.61  Aligned_cols=245  Identities=36%  Similarity=0.620  Sum_probs=214.1

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhh-----hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVN-----RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~-----~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ....|..+|++++|++.+|+++.+.+....     ...|.. |+++||+||||||||++|+++|++++.+++.++++++.
T Consensus        46 ~~~~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~  125 (495)
T TIGR01241        46 NEEKPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFV  125 (495)
T ss_pred             cCCCCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHH
Confidence            344688999999999999999998877542     222333 88999999999999999999999999999999999999


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCC-CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED-QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                      +.+.|.+.+.++.+|..++...||||||||+|.+..+++... .......+.+++|+.+|+++....+++||+|||+|+.
T Consensus       126 ~~~~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~  205 (495)
T TIGR01241       126 EMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDV  205 (495)
T ss_pred             HHHhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhh
Confidence            999999999999999999999999999999999998765421 1223345788999999999888889999999999999


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      +|++++|||||+..+++++ |+.++|.+|++.++++.....+.++..++..+ .||+|+||.++|++|+..|.++.    
T Consensus       206 ld~al~r~gRfd~~i~i~~-Pd~~~R~~il~~~l~~~~~~~~~~l~~la~~t-~G~sgadl~~l~~eA~~~a~~~~----  279 (495)
T TIGR01241       206 LDPALLRPGRFDRQVVVDL-PDIKGREEILKVHAKNKKLAPDVDLKAVARRT-PGFSGADLANLLNEAALLAARKN----  279 (495)
T ss_pred             cCHHHhcCCcceEEEEcCC-CCHHHHHHHHHHHHhcCCCCcchhHHHHHHhC-CCCCHHHHHHHHHHHHHHHHHcC----
Confidence            9999999999999999998 79999999999999988887888899999987 89999999999999998887653    


Q ss_pred             CCCCCCCccccHHHHHhchhccCCCccccc
Q psy450          431 PQVKSAPVIVTMDDFLGACSLATAPDKFSQ  460 (478)
Q Consensus       431 ~~~~~~~~~it~~d~~~A~~~~~~l~~~~p  460 (478)
                            ...||.+||..|      +.++..
T Consensus       280 ------~~~i~~~~l~~a------~~~~~~  297 (495)
T TIGR01241       280 ------KTEITMNDIEEA------IDRVIA  297 (495)
T ss_pred             ------CCCCCHHHHHHH------HHHHhc
Confidence                  457999999999      666544

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.

>KOG0741|consensus

Probab=100.00  E-value=1.3e-35  Score=289.49  Aligned_cols=262  Identities=38%  Similarity=0.645  Sum_probs=222.9

Q ss_pred             CCCCCCCccc--ccCcHHHHHHHHH-HHHhh------hhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCC-cEEEEec
Q psy450          199 PSVPNVSWED--IGGLSKLKAEILS-TFRGV------NRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRM-NFLAVKG  267 (478)
Q Consensus       199 ~~~~~~~~~~--i~g~~~~k~~l~~-~~~~~------~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~-~~~~v~~  267 (478)
                      ...|...|++  |+|+++.-..+-+ ++..-      ....|.+ .+|+|||||||||||.+||.|.+.++. +--.|++
T Consensus       211 ii~Pdf~Fe~mGIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNG  290 (744)
T KOG0741|consen  211 IINPDFNFESMGIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNG  290 (744)
T ss_pred             ccCCCCChhhcccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCc
Confidence            3456666765  6888877665533 22211      3345666 789999999999999999999999964 4567899


Q ss_pred             hhhhhhhhcchHHHHHHHHHHhHh--------CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCe
Q psy450          268 PELLNKYIGQSEENIRNVFLKARS--------AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDV  339 (478)
Q Consensus       268 ~~l~~~~~g~~~~~~~~~~~~a~~--------~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v  339 (478)
                      ++++++|+|+++.++|.+|..|..        ..-.||++||+|+++.+|++...++++.+.++++||..|||+..-.++
T Consensus       291 PeIL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeqLNNI  370 (744)
T KOG0741|consen  291 PEILNKYVGESEENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQLNNI  370 (744)
T ss_pred             HHHHHHhhcccHHHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccHHhhhcE
Confidence            999999999999999999998832        223699999999999999999999999999999999999999999999


Q ss_pred             EEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCC----CCCCCCHHHHHHhcCCCCCHHHHHHHH
Q psy450          340 FILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFK----LSDDVSLDSLVHHFPSQMSGADIYSIC  415 (478)
Q Consensus       340 ~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~----~~~~~~~~~la~~~~~~~sg~di~~l~  415 (478)
                      +||+-||+.+.+|++|+|||||...+++.+ |++.-|.+|++.+.+++.    ++.++++.+||..+ .+|||++|..++
T Consensus       371 LVIGMTNR~DlIDEALLRPGRlEVqmEIsL-PDE~gRlQIl~IHT~rMre~~~l~~dVdl~elA~lT-KNfSGAEleglV  448 (744)
T KOG0741|consen  371 LVIGMTNRKDLIDEALLRPGRLEVQMEISL-PDEKGRLQILKIHTKRMRENNKLSADVDLKELAALT-KNFSGAELEGLV  448 (744)
T ss_pred             EEEeccCchhhHHHHhcCCCceEEEEEEeC-CCccCceEEEEhhhhhhhhcCCCCCCcCHHHHHHHh-cCCchhHHHHHH
Confidence            999999999999999999999999999999 699999999988887653    67899999999997 899999999999


Q ss_pred             HHHHHHHHHHHHhcCCC-----CCCCCccccHHHHHhchhccCCCccccccc--cccccc
Q psy450          416 SNAWTRAIRRIITSAPQ-----VKSAPVIVTMDDFLGACSLATAPDKFSQSV--APDNYS  468 (478)
Q Consensus       416 ~~a~~~a~~r~~~~~~~-----~~~~~~~it~~d~~~A~~~~~~l~~~~ps~--~~~~~~  468 (478)
                      +.|.-.|+.|.++.+..     ...+...||++||..|      +..++|+.  +++++.
T Consensus       449 ksA~S~A~nR~vk~~~~~~~~~~~~e~lkV~r~DFl~a------L~dVkPAFG~see~l~  502 (744)
T KOG0741|consen  449 KSAQSFAMNRHVKAGGKVEVDPVAIENLKVTRGDFLNA------LEDVKPAFGISEEDLE  502 (744)
T ss_pred             HHHHHHHHHhhhccCcceecCchhhhheeecHHHHHHH------HHhcCcccCCCHHHHH
Confidence            99999999999876522     2356778999999999      99999984  555554

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=100.00  E-value=7.1e-34  Score=284.89  Aligned_cols=239  Identities=45%  Similarity=0.706  Sum_probs=210.8

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhh------CCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRT------SGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~------~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ....|.++|++++|++++++.+.+.+..+...      .|.. |+++||+||||||||++|+++|+.++.+++.+.+.++
T Consensus       113 ~~~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l  192 (364)
T TIGR01242       113 VEERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSEL  192 (364)
T ss_pred             eccCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHH
Confidence            44578899999999999999999998876332      3333 8899999999999999999999999999999999999


Q ss_pred             hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC-chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS-SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      ...+.|.....++.+|..++...|+||||||+|.+...+.....+ .....+.+.+++..++++....++.||+|||+++
T Consensus       193 ~~~~~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~  272 (364)
T TIGR01242       193 VRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPD  272 (364)
T ss_pred             HHHhhhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChh
Confidence            999999999999999999999999999999999998766433222 2234567788888888877777899999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      .+|++++++|||+..++++. |+.++|.+|++.++.+..+..++++..++..+ .||+|+||.++|++|+..|+++.   
T Consensus       273 ~ld~al~r~grfd~~i~v~~-P~~~~r~~Il~~~~~~~~l~~~~~~~~la~~t-~g~sg~dl~~l~~~A~~~a~~~~---  347 (364)
T TIGR01242       273 ILDPALLRPGRFDRIIEVPL-PDFEGRLEILKIHTRKMKLAEDVDLEAIAKMT-EGASGADLKAICTEAGMFAIREE---  347 (364)
T ss_pred             hCChhhcCcccCceEEEeCC-cCHHHHHHHHHHHHhcCCCCccCCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHhC---
Confidence            99999999999999999997 79999999999999998888888999999987 89999999999999999998874   


Q ss_pred             CCCCCCCCccccHHHHHhc
Q psy450          430 APQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A  448 (478)
                             ...||.+||.+|
T Consensus       348 -------~~~i~~~d~~~a  359 (364)
T TIGR01242       348 -------RDYVTMDDFIKA  359 (364)
T ss_pred             -------CCccCHHHHHHH
Confidence                   457999999999

Many proteins may score above the trusted cutoff because an internal

>KOG0651|consensus

Probab=100.00  E-value=3.1e-35  Score=270.55  Aligned_cols=240  Identities=39%  Similarity=0.625  Sum_probs=212.4

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      .-+++|++++|+-.+...+.+.+..+..      +-|.+ |.+++||||||+|||.+|+++|..++++|+.+..+++.++
T Consensus       126 ~~~~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~k  205 (388)
T KOG0651|consen  126 PRNISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDK  205 (388)
T ss_pred             ccccCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhh
Confidence            3467899999999999999998887732      23555 8999999999999999999999999999999999999999


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCch-hHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCC
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSG-VMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD  352 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~-~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld  352 (478)
                      |.|++.+.+++.|..|+...|||||+||+|...+++.+.+.++. ..++.+..|+++|+++....+|.+|+|||+|+.|+
T Consensus       206 yiGEsaRlIRemf~yA~~~~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~ImatNrpdtLd  285 (388)
T KOG0651|consen  206 YIGESARLIRDMFRYAREVIPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTIMATNRPDTLD  285 (388)
T ss_pred             hcccHHHHHHHHHHHHhhhCceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccEEEecCCccccc
Confidence            99999999999999999999999999999999998855444433 45567777888899998889999999999999999


Q ss_pred             ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy450          353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ  432 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~  432 (478)
                      |+|+||||+++.+++|+ |+...|..|++.+...+......+.+.+.+.. +||+|+|+++.|++|...|++..      
T Consensus       286 paLlRpGRldrk~~iPl-pne~~r~~I~Kih~~~i~~~Geid~eaivK~~-d~f~gad~rn~~tEag~Fa~~~~------  357 (388)
T KOG0651|consen  286 PALLRPGRLDRKVEIPL-PNEQARLGILKIHVQPIDFHGEIDDEAILKLV-DGFNGADLRNVCTEAGMFAIPEE------  357 (388)
T ss_pred             hhhcCCccccceeccCC-cchhhceeeEeeccccccccccccHHHHHHHH-hccChHHHhhhcccccccccchh------
Confidence            99999999999999999 69999999999998888888888899988877 99999999999999998888775      


Q ss_pred             CCCCCccccHHHHHhchhcc
Q psy450          433 VKSAPVIVTMDDFLGACSLA  452 (478)
Q Consensus       433 ~~~~~~~it~~d~~~A~~~~  452 (478)
                          ...+-+|||..+.+..
T Consensus       358 ----~~~vl~Ed~~k~vrk~  373 (388)
T KOG0651|consen  358 ----RDEVLHEDFMKLVRKQ  373 (388)
T ss_pred             ----hHHHhHHHHHHHHHHH
Confidence                3457899999994433

>CHL00176 ftsH cell division protein; Validated

Probab=100.00  E-value=9e-34  Score=297.81  Aligned_cols=237  Identities=38%  Similarity=0.652  Sum_probs=208.5

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhh-----hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~-----~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      ..+..+|++++|++++++.+.+.+.....     ..+.. ++++||+||||||||++|+++|++++.+++.++++++...
T Consensus       176 ~~~~~~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~  255 (638)
T CHL00176        176 ADTGITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEM  255 (638)
T ss_pred             cCCCCCHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHH
Confidence            34567899999999999999988766521     22333 8899999999999999999999999999999999999998


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCC-CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCC
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED-QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD  352 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld  352 (478)
                      +.|.....++.+|..++...||||||||+|.+...++.+. .........+++|+.+++++..+.+++||++||+++.+|
T Consensus       256 ~~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD  335 (638)
T CHL00176        256 FVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILD  335 (638)
T ss_pred             hhhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhh
Confidence            9998889999999999999999999999999987764332 223344678899999999988888999999999999999


Q ss_pred             ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy450          353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ  432 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~  432 (478)
                      ++++|||||+..+.+++ |+.++|.+||+.++++.....++++..++.++ .||+|+||.++|++|+..|.++.      
T Consensus       336 ~ALlRpGRFd~~I~v~l-Pd~~~R~~IL~~~l~~~~~~~d~~l~~lA~~t-~G~sgaDL~~lvneAal~a~r~~------  407 (638)
T CHL00176        336 AALLRPGRFDRQITVSL-PDREGRLDILKVHARNKKLSPDVSLELIARRT-PGFSGADLANLLNEAAILTARRK------  407 (638)
T ss_pred             hhhhccccCceEEEECC-CCHHHHHHHHHHHHhhcccchhHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHhC------
Confidence            99999999999999998 69999999999999988888888899999987 79999999999999998887764      


Q ss_pred             CCCCCccccHHHHHhc
Q psy450          433 VKSAPVIVTMDDFLGA  448 (478)
Q Consensus       433 ~~~~~~~it~~d~~~A  448 (478)
                          ...||++||.+|
T Consensus       408 ----~~~It~~dl~~A  419 (638)
T CHL00176        408 ----KATITMKEIDTA  419 (638)
T ss_pred             ----CCCcCHHHHHHH
Confidence                457999999999

>TIGR03689 pup_AAA proteasome ATPase

Probab=100.00  E-value=1.8e-33  Score=286.19  Aligned_cols=246  Identities=43%  Similarity=0.675  Sum_probs=201.5

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhh------hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCc---------
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVN------RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMN---------  261 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~------~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~---------  261 (478)
                      ....|..+|++|+|++.+++++.+.+..+.      ...|.+ |+++|||||||||||++|+++|++++.+         
T Consensus       173 ~~~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~  252 (512)
T TIGR03689       173 LEEVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKS  252 (512)
T ss_pred             eecCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCce
Confidence            466789999999999999999999988763      233554 8899999999999999999999998654         


Q ss_pred             -EEEEechhhhhhhhcchHHHHHHHHHHhHhC----CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCC
Q psy450          262 -FLAVKGPELLNKYIGQSEENIRNVFLKARSA----APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTS  336 (478)
Q Consensus       262 -~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  336 (478)
                       |+.+..+++.++|.|+++..++.+|..++..    .|+||||||+|.++.+++.+. ++....+++++|+..|+++...
T Consensus       253 ~fl~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~-s~d~e~~il~~LL~~LDgl~~~  331 (512)
T TIGR03689       253 YFLNIKGPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGV-SSDVETTVVPQLLSELDGVESL  331 (512)
T ss_pred             eEEeccchhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCc-cchHHHHHHHHHHHHhcccccC
Confidence             5667778899999999999999999988763    699999999999998775432 2334467889999999999888


Q ss_pred             CCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc-CCCC---------CCCCHHHHHHh-----
Q psy450          337 QDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK-FKLS---------DDVSLDSLVHH-----  401 (478)
Q Consensus       337 ~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~-~~~~---------~~~~~~~la~~-----  401 (478)
                      .+++||+|||+++.||++++||||||..|++++ |+.++|.+||+.++.. +++.         ...+...++..     
T Consensus       332 ~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~-Pd~e~r~~Il~~~l~~~l~l~~~l~~~~g~~~a~~~al~~~av~~~  410 (512)
T TIGR03689       332 DNVIVIGASNREDMIDPAILRPGRLDVKIRIER-PDAEAAADIFSKYLTDSLPLDADLAEFDGDREATAAALIQRAVDHL  410 (512)
T ss_pred             CceEEEeccCChhhCCHhhcCccccceEEEeCC-CCHHHHHHHHHHHhhccCCchHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            899999999999999999999999999999997 7999999999988764 3331         11122333222     


Q ss_pred             -----------------------cCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchhc
Q psy450          402 -----------------------FPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSL  451 (478)
Q Consensus       402 -----------------------~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~  451 (478)
                                             .++.+||++|.++|.+|...|+++.+...      ...++++|+..|+.-
T Consensus       411 ~a~~~~~~~l~~~~~~g~~~~l~~~d~~sGa~i~~iv~~a~~~ai~~~~~~~------~~~~~~~~l~~a~~~  477 (512)
T TIGR03689       411 YATSEENRYVEVTYANGSTEVLYFKDFVSGAMIANIVDRAKKRAIKDHITGG------QVGLRIEHLLAAVLD  477 (512)
T ss_pred             hhhhcccceeEEEecCCceeeEeecccccHHHHHHHHHHHHHHHHHHHHhcC------CcCcCHHHHHHHHHH
Confidence                                   14568999999999999999999987533      457999999999433

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.

>KOG0740|consensus

Probab=100.00  E-value=1.5e-33  Score=276.46  Aligned_cols=259  Identities=33%  Similarity=0.497  Sum_probs=222.7

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhh----CCCC--CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRT----SGLK--RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~----~~~~--~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      ..+++.|+++.|++.+|+.+.+.+.+|..+    .|.+  ++++||.||||+|||++++++|.+.+..|+.++.+.+.++
T Consensus       146 ~~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLtsK  225 (428)
T KOG0740|consen  146 TLRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTSK  225 (428)
T ss_pred             cCCcccccCCcchhhHHHHhhhhhhhcccchHhhhccccccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhhhh
Confidence            356788999999999999999999998432    2333  7899999999999999999999999999999999999999


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC--CCCeEEEEEcCCCCCC
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT--SQDVFILGATNRVDLL  351 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~v~vI~ttn~~~~l  351 (478)
                      |+|++++.++.+|.-|+...|+|+||||+|+++.+|.+  ......+++..+++.++++...  .++++||+|||+||.+
T Consensus       226 ~~Ge~eK~vralf~vAr~~qPsvifidEidslls~Rs~--~e~e~srr~ktefLiq~~~~~s~~~drvlvigaTN~P~e~  303 (428)
T KOG0740|consen  226 YVGESEKLVRALFKVARSLQPSVIFIDEIDSLLSKRSD--NEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGATNRPWEL  303 (428)
T ss_pred             ccChHHHHHHHHHHHHHhcCCeEEEechhHHHHhhcCC--cccccchhhhhHHHhhhccccCCCCCeEEEEecCCCchHH
Confidence            99999999999999999999999999999999998843  3334447888999888887654  4479999999999999


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCC-CCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc-
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFK-LSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS-  429 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~-~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~-  429 (478)
                      |.+++|  ||..++++|+ |+.+.|..+|+.++.+.+ ...+.++..+++.+ +||+|+||.++|++|++...+..... 
T Consensus       304 Dea~~R--rf~kr~yipl-Pd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~T-egysgsdi~~l~kea~~~p~r~~~~~~  379 (428)
T KOG0740|consen  304 DEAARR--RFVKRLYIPL-PDYETRSLLWKQLLKEQPNGLSDLDISLLAKVT-EGYSGSDITALCKEAAMGPLRELGGTT  379 (428)
T ss_pred             HHHHHH--HhhceeeecC-CCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHh-cCcccccHHHHHHHhhcCchhhcccch
Confidence            999999  9999999998 799999999999887763 33456799999887 99999999999999998888876542 


Q ss_pred             -CC-CCCCCCccccHHHHHhchhccCCCccccccccccccccc
Q psy450          430 -AP-QVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLS  470 (478)
Q Consensus       430 -~~-~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~~  470 (478)
                       .. .......+++..||..|      ++.++|+++...+..+
T Consensus       380 ~~~~~~~~~~r~i~~~df~~a------~~~i~~~~s~~~l~~~  416 (428)
T KOG0740|consen  380 DLEFIDADKIRPITYPDFKNA------FKNIKPSVSLEGLEKY  416 (428)
T ss_pred             hhhhcchhccCCCCcchHHHH------HHhhccccCccccchh
Confidence             11 13345667999999999      9999999998766443

>KOG0730|consensus

Probab=100.00  E-value=1.5e-32  Score=276.28  Aligned_cols=232  Identities=41%  Similarity=0.678  Sum_probs=211.2

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhh
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKY  274 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~  274 (478)
                      +..+ ++++|.....+.+.+.+..+.+      ..|.+ |+++|+|||||||||.+++++|++.++.++.++++++.+++
T Consensus       180 ~~~~-~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~  258 (693)
T KOG0730|consen  180 PEVG-DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKF  258 (693)
T ss_pred             cccc-cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhc
Confidence            5556 7999999999999999998843      23445 89999999999999999999999999999999999999999


Q ss_pred             hcchHHHHHHHHHHhHhCC-CeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCc
Q psy450          275 IGQSEENIRNVFLKARSAA-PCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDP  353 (478)
Q Consensus       275 ~g~~~~~~~~~~~~a~~~~-p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~  353 (478)
                      .|+++++++..|+.+.+.+ |+++||||+|.++|++.....   ...++..+++..|++.....+++|+++||+|+.||+
T Consensus       259 ~gEte~~LR~~f~~a~k~~~psii~IdEld~l~p~r~~~~~---~e~Rv~sqlltL~dg~~~~~~vivl~atnrp~sld~  335 (693)
T KOG0730|consen  259 PGETESNLRKAFAEALKFQVPSIIFIDELDALCPKREGADD---VESRVVSQLLTLLDGLKPDAKVIVLAATNRPDSLDP  335 (693)
T ss_pred             ccchHHHHHHHHHHHhccCCCeeEeHHhHhhhCCcccccch---HHHHHHHHHHHHHhhCcCcCcEEEEEecCCccccCh
Confidence            9999999999999999999 999999999999998865433   568999999999999988899999999999999999


Q ss_pred             cccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCC
Q psy450          354 AILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQV  433 (478)
Q Consensus       354 ~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~  433 (478)
                      +++| ||||..+.+.. |+...|.+|++.++++++..+++++.+++..+ .||+|+|+..+|++|...+.++        
T Consensus       336 alRR-gRfd~ev~Igi-P~~~~RldIl~~l~k~~~~~~~~~l~~iA~~t-hGyvGaDL~~l~~ea~~~~~r~--------  404 (693)
T KOG0730|consen  336 ALRR-GRFDREVEIGI-PGSDGRLDILRVLTKKMNLLSDVDLEDIAVST-HGYVGADLAALCREASLQATRR--------  404 (693)
T ss_pred             hhhc-CCCcceeeecC-CCchhHHHHHHHHHHhcCCcchhhHHHHHHHc-cchhHHHHHHHHHHHHHHHhhh--------
Confidence            9999 99999999999 69999999999999999998889999999987 8999999999999999999998        


Q ss_pred             CCCCccccHHHHHhchhccCCCcccccc
Q psy450          434 KSAPVIVTMDDFLGACSLATAPDKFSQS  461 (478)
Q Consensus       434 ~~~~~~it~~d~~~A~~~~~~l~~~~ps  461 (478)
                             |+++|..|      +..++||
T Consensus       405 -------~~~~~~~A------~~~i~ps  419 (693)
T KOG0730|consen  405 -------TLEIFQEA------LMGIRPS  419 (693)
T ss_pred             -------hHHHHHHH------HhcCCch
Confidence                   56677777      6666655

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=100.00  E-value=4e-32  Score=288.73  Aligned_cols=245  Identities=33%  Similarity=0.595  Sum_probs=214.5

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhh-----hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~-----~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      ......|+++.|.+..++.+.+.+.....     ..+.. +++++|+||||||||+++++++++++.+|+.++++++...
T Consensus       145 ~~~~~~~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~  224 (644)
T PRK10733        145 DQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEM  224 (644)
T ss_pred             hhhhCcHHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHh
Confidence            34566799999999999999998876521     22233 7889999999999999999999999999999999999999


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCC-CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCC
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED-QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD  352 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld  352 (478)
                      +.|.....++.+|..++...||||||||+|.+..+++.+. .......+.+++++.+|+++..+.+++||+|||+|+.+|
T Consensus       225 ~~g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD  304 (644)
T PRK10733        225 FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLD  304 (644)
T ss_pred             hhcccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcC
Confidence            9999999999999999999999999999999998775422 222344578899999999998888999999999999999


Q ss_pred             ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy450          353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ  432 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~  432 (478)
                      ++++|||||++.+++++ |+.++|.+|++.++++.++..++++..+++.+ .||||+||.++|++|+..|+++.      
T Consensus       305 ~Al~RpgRfdr~i~v~~-Pd~~~R~~Il~~~~~~~~l~~~~d~~~la~~t-~G~sgadl~~l~~eAa~~a~r~~------  376 (644)
T PRK10733        305 PALLRPGRFDRQVVVGL-PDVRGREQILKVHMRRVPLAPDIDAAIIARGT-PGFSGADLANLVNEAALFAARGN------  376 (644)
T ss_pred             HHHhCCcccceEEEcCC-CCHHHHHHHHHHHhhcCCCCCcCCHHHHHhhC-CCCCHHHHHHHHHHHHHHHHHcC------
Confidence            99999999999999998 69999999999999999998899999999987 89999999999999999988763      


Q ss_pred             CCCCCccccHHHHHhchhccCCCccccccc
Q psy450          433 VKSAPVIVTMDDFLGACSLATAPDKFSQSV  462 (478)
Q Consensus       433 ~~~~~~~it~~d~~~A~~~~~~l~~~~ps~  462 (478)
                          ...||.+||.+|      +.++.++.
T Consensus       377 ----~~~i~~~d~~~a------~~~v~~g~  396 (644)
T PRK10733        377 ----KRVVSMVEFEKA------KDKIMMGA  396 (644)
T ss_pred             ----CCcccHHHHHHH------HHHHhccc
Confidence                457999999999      76665543

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

Probab=99.98  E-value=3.1e-31  Score=253.65  Aligned_cols=217  Identities=22%  Similarity=0.295  Sum_probs=169.1

Q ss_pred             CCcccc-cCcHHHHHHHHHHHHhh----hhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcc
Q psy450          204 VSWEDI-GGLSKLKAEILSTFRGV----NRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQ  277 (478)
Q Consensus       204 ~~~~~i-~g~~~~k~~l~~~~~~~----~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~  277 (478)
                      .+|+++ +|+--.+.-+...+...    ...++.+ |.+++||||||||||++|+++|++++.+++.++++++.++|.|+
T Consensus       112 ~~f~~~~g~~~~~p~f~dk~~~hi~kn~l~~~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~vGE  191 (413)
T PLN00020        112 RSFDNLVGGYYIAPAFMDKVAVHIAKNFLALPNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGE  191 (413)
T ss_pred             cchhhhcCccccCHHHHHHHHHHHHhhhhhccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcCCc
Confidence            445666 55544444444433332    3334555 99999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHhHh-----CCCeEEEEcCCccccCCCCCCCCCchhHHHH-HHHHHHhhcCC------------CCCCCe
Q psy450          278 SEENIRNVFLKARS-----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRV-VSQLLAEMDGV------------HTSQDV  339 (478)
Q Consensus       278 ~~~~~~~~~~~a~~-----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~-~~~ll~~l~~~------------~~~~~v  339 (478)
                      +++.++++|..|..     .+||||||||||.+++++++.  +.....++ ..+|++.+|+.            ....++
T Consensus       192 sEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~~g~r~~~--~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V  269 (413)
T PLN00020        192 PGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFGTT--QYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRV  269 (413)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCeEEEEehhhhcCCCCCCC--CcchHHHHHHHHHHHHhcCCccccccccccccccCCCc
Confidence            99999999999974     479999999999999988632  22332344 47899988863            235579


Q ss_pred             EEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCC---CCHHHHHHHHH
Q psy450          340 FILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQ---MSGADIYSICS  416 (478)
Q Consensus       340 ~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~---~sg~di~~l~~  416 (478)
                      +||+|||+|+.||++|+|+||||+.++  + |+.++|.+|++.++++.+++ ..++..|+..++..   |.|+--..+..
T Consensus       270 ~VIaTTNrpd~LDpALlRpGRfDk~i~--l-Pd~e~R~eIL~~~~r~~~l~-~~dv~~Lv~~f~gq~~Df~GAlrar~yd  345 (413)
T PLN00020        270 PIIVTGNDFSTLYAPLIRDGRMEKFYW--A-PTREDRIGVVHGIFRDDGVS-REDVVKLVDTFPGQPLDFFGALRARVYD  345 (413)
T ss_pred             eEEEeCCCcccCCHhHcCCCCCCceeC--C-CCHHHHHHHHHHHhccCCCC-HHHHHHHHHcCCCCCchhhhHHHHHHHH
Confidence            999999999999999999999999764  4 69999999999999998876 46788888876322   66765566666


Q ss_pred             HHHHHHHHHH
Q psy450          417 NAWTRAIRRI  426 (478)
Q Consensus       417 ~a~~~a~~r~  426 (478)
                      ++....+.+.
T Consensus       346 ~~v~~~i~~~  355 (413)
T PLN00020        346 DEVRKWIAEV  355 (413)
T ss_pred             HHHHHHHHHh
Confidence            6666655553

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.98  E-value=1.7e-31  Score=294.29  Aligned_cols=195  Identities=17%  Similarity=0.298  Sum_probs=163.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhh---------------------------------------
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKY---------------------------------------  274 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~---------------------------------------  274 (478)
                      |+||||+||||||||++|+++|.+++.||+.++++++++.+                                       
T Consensus      1630 PKGILLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~~e~~e~~n~~~ 1709 (2281)
T CHL00206       1630 SRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLTMMNALT 1709 (2281)
T ss_pred             CCceEEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhhcccccccccccccccccccccccccccccchhhhhhcchhh
Confidence            89999999999999999999999999999999999998654                                       


Q ss_pred             --hcchH--HHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---CCCCeEEEEEcCC
Q psy450          275 --IGQSE--ENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---TSQDVFILGATNR  347 (478)
Q Consensus       275 --~g~~~--~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---~~~~v~vI~ttn~  347 (478)
                        .+..+  ..++.+|+.|+..+||||||||||.+..+..      .  ...+.+|+.+|++..   ...+|+||||||+
T Consensus      1710 ~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~~ds------~--~ltL~qLLneLDg~~~~~s~~~VIVIAATNR 1781 (2281)
T CHL00206       1710 MDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNVNES------N--YLSLGLLVNSLSRDCERCSTRNILVIASTHI 1781 (2281)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCCCcc------c--eehHHHHHHHhccccccCCCCCEEEEEeCCC
Confidence              11222  2388899999999999999999999986521      0  123788899998753   3557999999999


Q ss_pred             CCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH--hcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Q psy450          348 VDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV--RKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWTRAIR  424 (478)
Q Consensus       348 ~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~--~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~  424 (478)
                      |+.+|||++||||||+.|+++. |+..+|.+++..++  +++.+..+ +++..+|..+ .||+|+||.++|++|+..|++
T Consensus      1782 PD~LDPALLRPGRFDR~I~Ir~-Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T-~GfSGADLanLvNEAaliAir 1859 (2281)
T CHL00206       1782 PQKVDPALIAPNKLNTCIKIRR-LLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSIT-MGSNARDLVALTNEALSISIT 1859 (2281)
T ss_pred             cccCCHhHcCCCCCCeEEEeCC-CCchhHHHHHHHHHhhcCCCCCcccccHHHHHHhC-CCCCHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998 57777888877543  45555543 6799999987 899999999999999999999


Q ss_pred             HHHhcCCCCCCCCccccHHHHHhc
Q psy450          425 RIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       425 r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      +.          ...|+.+||..|
T Consensus      1860 q~----------ks~Id~~~I~~A 1873 (2281)
T CHL00206       1860 QK----------KSIIDTNTIRSA 1873 (2281)
T ss_pred             cC----------CCccCHHHHHHH
Confidence            85          457999999999

>KOG0732|consensus

Probab=99.97  E-value=2.2e-31  Score=282.58  Aligned_cols=312  Identities=29%  Similarity=0.472  Sum_probs=238.0

Q ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHH--------HHHhhhhcccCCCCCCCCCCCccccc
Q psy450          139 VEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQI--------YDDLQSRYSDQLDAPSVPNVSWEDIG  210 (478)
Q Consensus       139 i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a--------~~~~~~~~~~~~~~~~~~~~~~~~i~  210 (478)
                      +...++.+.++.++.....+.+++.......   ...+.. .+..+        ....++. ++.-..-....+.|++++
T Consensus       194 ~r~~~~s~~~~~~~~~~~~~~~~~~i~~~~s---~~~~~~-~~~~~~t~~~~~~~~~~~~~-~d~dp~~~~~~v~fd~vg  268 (1080)
T KOG0732|consen  194 KRGQVQSRLHMHKSSGDTERSRSLRIESWSS---GKNLQS-LFDKLNTKGLQTAGLRVQKE-ADSDPLSVDSSVGFDSVG  268 (1080)
T ss_pred             hhhhhcccccccccccchhhhhhhhhhhccc---ccccch-hhhhhhcCccccchhhcccc-cccCchhhhcccCccccc
Confidence            3566667777777777777777666553221   111111 11111        1111111 111111223568899999


Q ss_pred             CcHHHHHHHHHHHHhhh------hhCCCC-CceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhhhhhhcch
Q psy450          211 GLSKLKAEILSTFRGVN------RTSGLK-RSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELLNKYIGQS  278 (478)
Q Consensus       211 g~~~~k~~l~~~~~~~~------~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~~~~~g~~  278 (478)
                      |++.++.+|++.+..|+      ...+.. |+|+|++||||||||++|+++|..+     +..|+.-++++..++|+|+.
T Consensus       269 gl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD~lskwvgEa  348 (1080)
T KOG0732|consen  269 GLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGADCLSKWVGEA  348 (1080)
T ss_pred             cHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCchhhccccCcH
Confidence            99999999999998873      223344 8999999999999999999999887     34567777899999999999


Q ss_pred             HHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCC
Q psy450          279 EENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRP  358 (478)
Q Consensus       279 ~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~  358 (478)
                      +..++.+|+.|++..|+|+|+||||-|++.++..  +...-..++.+|+..|+|+...+.|+||++||+|+.+||+++||
T Consensus       349 ERqlrllFeeA~k~qPSIIffdeIdGlapvrSsk--qEqih~SIvSTLLaLmdGldsRgqVvvigATnRpda~dpaLRRP  426 (1080)
T KOG0732|consen  349 ERQLRLLFEEAQKTQPSIIFFDEIDGLAPVRSSK--QEQIHASIVSTLLALMDGLDSRGQVVVIGATNRPDAIDPALRRP  426 (1080)
T ss_pred             HHHHHHHHHHHhccCceEEeccccccccccccch--HHHhhhhHHHHHHHhccCCCCCCceEEEcccCCccccchhhcCC
Confidence            9999999999999999999999999999988543  22333578999999999999999999999999999999999999


Q ss_pred             CCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCC-----
Q psy450          359 GRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ-----  432 (478)
Q Consensus       359 ~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~-----  432 (478)
                      |||++.++|++ |+.+.|.+|+..+.++..-. ....+..++..+ .||.|+||+++|.+|+..++++..-+.-.     
T Consensus       427 grfdref~f~l-p~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t-~gy~gaDlkaLCTeAal~~~~r~~Pq~y~s~~kl  504 (1080)
T KOG0732|consen  427 GRFDREFYFPL-PDVDARAKILDIHTRKWEPPISRELLLWLAEET-SGYGGADLKALCTEAALIALRRSFPQIYSSSDKL  504 (1080)
T ss_pred             cccceeEeeeC-CchHHHHHHHHHhccCCCCCCCHHHHHHHHHhc-cccchHHHHHHHHHHhhhhhccccCeeecccccc
Confidence            99999999999 68999999999887765522 223366777776 89999999999999999999996532211     


Q ss_pred             -CCCCCccccHHHHHhchhccCCCcccccccccc
Q psy450          433 -VKSAPVIVTMDDFLGACSLATAPDKFSQSVAPD  465 (478)
Q Consensus       433 -~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~  465 (478)
                       .......|+..||..|      +.++-|+...+
T Consensus       505 ~~d~~~ikV~~~~f~~A------~~~i~ps~~R~  532 (1080)
T KOG0732|consen  505 LIDVALIKVEVRDFVEA------MSRITPSSRRS  532 (1080)
T ss_pred             cccchhhhhhhHhhhhh------hhccCCCCCcc
Confidence             1223344999999999      88888887654

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.97  E-value=2.1e-30  Score=281.43  Aligned_cols=252  Identities=41%  Similarity=0.693  Sum_probs=219.7

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      .+..+|++++|++++++.+.+.+..+..      ..+.. ++++||+||||||||++++++|++++.+++.++++++.+.
T Consensus       172 ~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~  251 (733)
T TIGR01243       172 VPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSK  251 (733)
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhcc
Confidence            5788999999999999999999887632      33444 7899999999999999999999999999999999999999


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCc
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDP  353 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~  353 (478)
                      +.|.++..++.+|..+....|+||||||+|.+.++++..  ......+++++|+..++++....+++||++||+++.+|+
T Consensus       252 ~~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~--~~~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~~~ld~  329 (733)
T TIGR01243       252 YYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEV--TGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDP  329 (733)
T ss_pred             cccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCC--cchHHHHHHHHHHHHhhccccCCCEEEEeecCChhhcCH
Confidence            999999999999999999999999999999999876432  233446788999999999887888999999999999999


Q ss_pred             cccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCC-
Q psy450          354 AILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ-  432 (478)
Q Consensus       354 ~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~-  432 (478)
                      +++++|||+..+++++ |+.++|.+|++.+.+...+..++++..++..+ .||+|+|+..+|+.|+..++++....... 
T Consensus       330 al~r~gRfd~~i~i~~-P~~~~R~~Il~~~~~~~~l~~d~~l~~la~~t-~G~~gadl~~l~~~a~~~al~r~~~~~~~~  407 (733)
T TIGR01243       330 ALRRPGRFDREIVIRV-PDKRARKEILKVHTRNMPLAEDVDLDKLAEVT-HGFVGADLAALAKEAAMAALRRFIREGKIN  407 (733)
T ss_pred             HHhCchhccEEEEeCC-cCHHHHHHHHHHHhcCCCCccccCHHHHHHhC-CCCCHHHHHHHHHHHHHHHHHHHhhccccc
Confidence            9999999999999998 69999999999999998888888999999987 89999999999999999999997652211 


Q ss_pred             --------CCCCCccccHHHHHhchhccCCCccccccc
Q psy450          433 --------VKSAPVIVTMDDFLGACSLATAPDKFSQSV  462 (478)
Q Consensus       433 --------~~~~~~~it~~d~~~A~~~~~~l~~~~ps~  462 (478)
                              .......++.+||..|      ++.++|+.
T Consensus       408 ~~~~~i~~~~~~~~~v~~~df~~A------l~~v~ps~  439 (733)
T TIGR01243       408 FEAEEIPAEVLKELKVTMKDFMEA------LKMVEPSA  439 (733)
T ss_pred             cccccccchhcccccccHHHHHHH------Hhhccccc
Confidence                    0123456899999999      77777764

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.

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

Probab=99.97  E-value=1.7e-30  Score=244.52  Aligned_cols=155  Identities=16%  Similarity=0.264  Sum_probs=143.2

Q ss_pred             HHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhh
Q psy450           17 SHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQ   83 (478)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~   83 (478)
                      +.|+.+|+|+... -+|++|. .|++++||||||||||+|+++|             ..-+||++||+            
T Consensus       219 SElVqKYiGEGaR-lVRelF~-lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDG------------  284 (406)
T COG1222         219 SELVQKYIGEGAR-LVRELFE-LAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDG------------  284 (406)
T ss_pred             HHHHHHHhccchH-HHHHHHH-HHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccC------------
Confidence            4578888888776 9999999 9999999999999999999998             46688999995            


Q ss_pred             ccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHH
Q psy450           84 CKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDL  154 (478)
Q Consensus        84 ~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di  154 (478)
                      ++..++|-||+       |||||+|  |||+.|+||+||.+.|.+||+.|++++  .+..+++| +.||+.|+|+|||||
T Consensus       285 FD~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM--~l~~dvd~-e~la~~~~g~sGAdl  361 (406)
T COG1222         285 FDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKM--NLADDVDL-ELLARLTEGFSGADL  361 (406)
T ss_pred             CCCCCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhc--cCccCcCH-HHHHHhcCCCchHHH
Confidence            58889999999       9999999  999999999999999999999999999  88999999 999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhh
Q psy450          155 TCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       155 ~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      +++|.+|.+.|+++   ....++++||..|.+.+...
T Consensus       362 kaictEAGm~AiR~---~R~~Vt~~DF~~Av~KV~~~  395 (406)
T COG1222         362 KAICTEAGMFAIRE---RRDEVTMEDFLKAVEKVVKK  395 (406)
T ss_pred             HHHHHHHhHHHHHh---ccCeecHHHHHHHHHHHHhc
Confidence            99999999999987   67889999999999988653

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

Probab=99.96  E-value=7.1e-27  Score=253.11  Aligned_cols=384  Identities=16%  Similarity=0.194  Sum_probs=255.5

Q ss_pred             HHH--HhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-
Q psy450           18 HLL--TNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-   94 (478)
Q Consensus        18 ~~~--~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-   94 (478)
                      .++  ++|.++..+ .++.+|+ .+++..|+||||||+|.|++.+.-..  ..+|...      ...+...++.+.+|| 
T Consensus       248 ~l~a~~~~~g~~e~-~l~~i~~-~~~~~~~~ILfiDEih~l~~~g~~~~--~~~~~~~------~L~~~l~~g~i~~Iga  317 (731)
T TIGR02639       248 SLLAGTKYRGDFEE-RLKAVVS-EIEKEPNAILFIDEIHTIVGAGATSG--GSMDASN------LLKPALSSGKLRCIGS  317 (731)
T ss_pred             HHhhhccccchHHH-HHHHHHH-HHhccCCeEEEEecHHHHhccCCCCC--ccHHHHH------HHHHHHhCCCeEEEEe
Confidence            455  355555555 9999999 88888899999999999987541000  0111100      011223467799999 


Q ss_pred             -----------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCC--CCCCChhHHHHHHHhcCCCCHHH-----HHH
Q psy450           95 -----------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGG--DYGFDASLVEYLSSVTSGFERHD-----LTC  156 (478)
Q Consensus        95 -----------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~--~~~~~~~~i~~la~~t~G~s~~d-----i~~  156 (478)
                                 .|+|++|||. .|+|+.|+.+++.+||+.....+..  ....+.+.+..++..+..|-+..     --.
T Consensus       318 Tt~~e~~~~~~~d~al~rRf~-~i~v~~p~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~ryi~~r~~P~kai~  396 (731)
T TIGR02639       318 TTYEEYKNHFEKDRALSRRFQ-KIDVGEPSIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSARYINDRFLPDKAID  396 (731)
T ss_pred             cCHHHHHHHhhhhHHHHHhCc-eEEeCCCCHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhhcccccccCCHHHHH
Confidence                       6999999996 7999999999999999988765432  22345555688888887775443     355


Q ss_pred             HHHHHHHHHHHhh-cCCCCCCCHHHHHHHHHHhhhhcccCCCC------CCCCCCCcccccCcHHHHHHHHHHHHhhhhh
Q psy450          157 LVRLSVKNKMLKQ-GINKRDLQKEDFQQIYDDLQSRYSDQLDA------PSVPNVSWEDIGGLSKLKAEILSTFRGVNRT  229 (478)
Q Consensus       157 l~~~a~~~a~~~~-~~~~~~it~~d~~~a~~~~~~~~~~~~~~------~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~  229 (478)
                      ++++|+.....+. ......++.+|+..++..+.+........      ......-...++|++.+++.+...+......
T Consensus       397 lld~a~a~~~~~~~~~~~~~v~~~~i~~~i~~~tgiP~~~~~~~~~~~l~~l~~~l~~~v~GQ~~ai~~l~~~i~~~~~g  476 (731)
T TIGR02639       397 VIDEAGASFRLRPKAKKKANVSVKDIENVVAKMAHIPVKTVSVDDREKLKNLEKNLKAKIFGQDEAIDSLVSSIKRSRAG  476 (731)
T ss_pred             HHHHhhhhhhcCcccccccccCHHHHHHHHHHHhCCChhhhhhHHHHHHHHHHHHHhcceeCcHHHHHHHHHHHHHHhcC
Confidence            6677665443221 12345699999999999886432211110      0111222456899999999998887765322


Q ss_pred             C---CCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh-----hhcchHH-----HHHHHHHHhHhCCCeE
Q psy450          230 S---GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK-----YIGQSEE-----NIRNVFLKARSAAPCV  296 (478)
Q Consensus       230 ~---~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~-----~~g~~~~-----~~~~~~~~a~~~~p~i  296 (478)
                      .   +.+..++||+||||||||++|+++|+.++.+++.++++++...     ..|....     ....+....+....+|
T Consensus       477 ~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~~~~lig~~~gyvg~~~~~~l~~~~~~~p~~V  556 (731)
T TIGR02639       477 LGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHTVSRLIGAPPGYVGFEQGGLLTEAVRKHPHCV  556 (731)
T ss_pred             CCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcccHHHHhcCCCCCcccchhhHHHHHHHhCCCeE
Confidence            1   2223458999999999999999999999999999999886532     1221110     1112333445566789


Q ss_pred             EEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCeEEEEEcCCCC------------------
Q psy450          297 VFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDVFILGATNRVD------------------  349 (478)
Q Consensus       297 l~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~vI~ttn~~~------------------  349 (478)
                      |+|||+|++.+             .+.+.|+..++...         +-.+.++|+|||...                  
T Consensus       557 vllDEieka~~-------------~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn~g~~~~~~~~~~f~~~~~~~~  623 (731)
T TIGR02639       557 LLLDEIEKAHP-------------DIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAGASEMSKPPIGFGSENVESK  623 (731)
T ss_pred             EEEechhhcCH-------------HHHHHHHHhhccCeeecCCCcccCCCCCEEEECCCcchhhhhhccCCcchhhhHHH
Confidence            99999999873             46677777776431         124688999998631                  


Q ss_pred             -------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcC-------CCCC---CCCHHHHHHh-cCCCCCHHHH
Q psy450          350 -------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKF-------KLSD---DVSLDSLVHH-FPSQMSGADI  411 (478)
Q Consensus       350 -------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~-------~~~~---~~~~~~la~~-~~~~~sg~di  411 (478)
                             .+.|.++.  |++.++.|.. .+.++..+|++..++++       ++.-   +.-.+.|+.. +...|.++.|
T Consensus       624 ~~~~~~~~f~pef~~--Rid~Vi~F~p-Ls~e~l~~Iv~~~L~~l~~~l~~~~~~l~i~~~a~~~La~~~~~~~~GaR~l  700 (731)
T TIGR02639       624 SDKAIKKLFSPEFRN--RLDAIIHFNP-LSEEVLEKIVQKFVDELSKQLNEKNIKLELTDDAKKYLAEKGYDEEFGARPL  700 (731)
T ss_pred             HHHHHHhhcChHHHh--cCCeEEEcCC-CCHHHHHHHHHHHHHHHHHHHHhCCCeEEeCHHHHHHHHHhCCCcccCchHH
Confidence                   24667776  9999999985 79999999998776431       1111   1225556664 3345667888


Q ss_pred             HHHHHHHHHHHHHHHHh
Q psy450          412 YSICSNAWTRAIRRIIT  428 (478)
Q Consensus       412 ~~l~~~a~~~a~~r~~~  428 (478)
                      +.+++.-...++.+.+-
T Consensus       701 ~r~i~~~~~~~l~~~~l  717 (731)
T TIGR02639       701 ARVIQEEIKKPLSDEIL  717 (731)
T ss_pred             HHHHHHHhHHHHHHHHH
Confidence            88888888777776653

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

Probab=99.95  E-value=4.7e-26  Score=243.55  Aligned_cols=380  Identities=14%  Similarity=0.151  Sum_probs=251.7

Q ss_pred             hhccCccchhhhhHHHHhhhhcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-------
Q psy450           22 NYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-------   94 (478)
Q Consensus        22 ~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-------   94 (478)
                      +|.++..+ .++.+|+ .+++..++||||||+|.|++.+.-..  .++|..+      ...+...++.+.|||       
T Consensus       258 ~~~Ge~e~-rl~~l~~-~l~~~~~~ILfIDEIh~L~g~g~~~~--g~~d~~n------lLkp~L~~g~i~vIgATt~~E~  327 (758)
T PRK11034        258 KYRGDFEK-RFKALLK-QLEQDTNSILFIDEIHTIIGAGAASG--GQVDAAN------LIKPLLSSGKIRVIGSTTYQEF  327 (758)
T ss_pred             chhhhHHH-HHHHHHH-HHHhcCCCEEEeccHHHHhccCCCCC--cHHHHHH------HHHHHHhCCCeEEEecCChHHH
Confidence            44444444 8999998 88888899999999999987652100  1122100      012345577899999       


Q ss_pred             -----eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCC--ChhHHHHHHHhc-----CCCCHHHHHHHHHHHH
Q psy450           95 -----IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGF--DASLVEYLSSVT-----SGFERHDLTCLVRLSV  162 (478)
Q Consensus        95 -----ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~--~~~~i~~la~~t-----~G~s~~di~~l~~~a~  162 (478)
                           .|||+.|||+ .|+|+.|+.+++.+||+.+...++..+..  +.+.+...+..+     +.+.+.....++++|+
T Consensus       328 ~~~~~~D~AL~rRFq-~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdKaidlldea~  406 (758)
T PRK11034        328 SNIFEKDRALARRFQ-KIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAG  406 (758)
T ss_pred             HHHhhccHHHHhhCc-EEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHHHHHHHHHHH
Confidence                 6999999995 79999999999999999988776433332  333334444433     3456667888899888


Q ss_pred             HHHHHhh-cCCCCCCCHHHHHHHHHHhhhhcccCCCCCC------CCCCCcccccCcHHHHHHHHHHHHhhhhhC---CC
Q psy450          163 KNKMLKQ-GINKRDLQKEDFQQIYDDLQSRYSDQLDAPS------VPNVSWEDIGGLSKLKAEILSTFRGVNRTS---GL  232 (478)
Q Consensus       163 ~~a~~~~-~~~~~~it~~d~~~a~~~~~~~~~~~~~~~~------~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~---~~  232 (478)
                      ....... ......++.+|+...+..+.+..........      ....--..++|++++++.+...+.......   +.
T Consensus       407 a~~~~~~~~~~~~~v~~~~i~~v~~~~tgip~~~~~~~~~~~l~~l~~~L~~~ViGQ~~ai~~l~~~i~~~~~gl~~~~k  486 (758)
T PRK11034        407 ARARLMPVSKRKKTVNVADIESVVARIARIPEKSVSQSDRDTLKNLGDRLKMLVFGQDKAIEALTEAIKMSRAGLGHEHK  486 (758)
T ss_pred             HhhccCcccccccccChhhHHHHHHHHhCCChhhhhhhHHHHHHHHHHHhcceEeCcHHHHHHHHHHHHHHhccccCCCC
Confidence            7553210 1123468889999998887654332221100      111122458999999999999887664322   22


Q ss_pred             CCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh-----hhhcchHHH----HHHHH-HHhHhCCCeEEEEcCC
Q psy450          233 KRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN-----KYIGQSEEN----IRNVF-LKARSAAPCVVFFDEL  302 (478)
Q Consensus       233 ~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~-----~~~g~~~~~----~~~~~-~~a~~~~p~il~iDei  302 (478)
                      +..++||+||||||||++|+++|+.++.+++.++++++..     ...|.....    ....+ ...+....+||+|||+
T Consensus       487 p~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~LiG~~~gyvg~~~~g~L~~~v~~~p~sVlllDEi  566 (758)
T PRK11034        487 PVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEI  566 (758)
T ss_pred             CcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHcCCCCCcccccccchHHHHHHhCCCcEEEeccH
Confidence            2346999999999999999999999999999999987642     223321111    11122 2334455689999999


Q ss_pred             ccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCeEEEEEcCCC-------------------------
Q psy450          303 DSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDVFILGATNRV-------------------------  348 (478)
Q Consensus       303 d~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~vI~ttn~~-------------------------  348 (478)
                      |++.+             .+.+.|+..++.-.         +-.++++|+|||.-                         
T Consensus       567 eka~~-------------~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~g~~~~~~~~~g~~~~~~~~~~~~~~~  633 (758)
T PRK11034        567 EKAHP-------------DVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIK  633 (758)
T ss_pred             hhhhH-------------HHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCcCHHHHhhcccCcccchhhHHHHHHHH
Confidence            99973             46777777776321         12468899999932                         


Q ss_pred             CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc-------CCCCCCCC---HHHHHHhc-CCCCCHHHHHHHHHH
Q psy450          349 DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK-------FKLSDDVS---LDSLVHHF-PSQMSGADIYSICSN  417 (478)
Q Consensus       349 ~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~-------~~~~~~~~---~~~la~~~-~~~~sg~di~~l~~~  417 (478)
                      ..+.|.++.  |+|..+.|+. .+.++...|+...+..       .++.-.++   ++.|+... ...|-.+.++.+++.
T Consensus       634 ~~f~pefl~--Rid~ii~f~~-L~~~~l~~I~~~~l~~~~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GAR~l~r~i~~  710 (758)
T PRK11034        634 KIFTPEFRN--RLDNIIWFDH-LSTDVIHQVVDKFIVELQAQLDQKGVSLEVSQEARDWLAEKGYDRAMGARPMARVIQD  710 (758)
T ss_pred             HhcCHHHHc--cCCEEEEcCC-CCHHHHHHHHHHHHHHHHHHHHHCCCCceECHHHHHHHHHhCCCCCCCCchHHHHHHH
Confidence            125577777  9999999985 7898888888765532       23322222   55566533 223556788888888


Q ss_pred             HHHHHHHHHHh
Q psy450          418 AWTRAIRRIIT  428 (478)
Q Consensus       418 a~~~a~~r~~~  428 (478)
                      -....+.+.+-
T Consensus       711 ~l~~~la~~il  721 (758)
T PRK11034        711 NLKKPLANELL  721 (758)
T ss_pred             HHHHHHHHHHH
Confidence            88887777654

>KOG0736|consensus

Probab=99.95  E-value=1.7e-27  Score=242.17  Aligned_cols=173  Identities=14%  Similarity=0.152  Sum_probs=155.4

Q ss_pred             hhhHHHHHhhHHHHHHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch------------hhHhhhccc
Q psy450            2 EYIESFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK------------YVYFKLCSF   69 (478)
Q Consensus         2 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r------------~~~~~l~~~   69 (478)
                      |.+++|+++++||+|++|++.+     +.|+|+||. .||..+||||||||+|+++++|            +|+|+|.+|
T Consensus       728 EcsL~FlSVKGPELLNMYVGqS-----E~NVR~VFe-rAR~A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAEL  801 (953)
T KOG0736|consen  728 ECSLNFLSVKGPELLNMYVGQS-----EENVREVFE-RARSAAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAEL  801 (953)
T ss_pred             hceeeEEeecCHHHHHHHhcch-----HHHHHHHHH-HhhccCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHh
Confidence            7899999999999999988766     669999999 9999999999999999999987            899999999


Q ss_pred             cccccccccchhhhccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCC-HHHHHHHHHHHHhhcCCCCCCChhHH
Q psy450           70 DSVNVKSNETKDQQCKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLT-EPERRLLIQYQLDCLGGDYGFDASLV  139 (478)
Q Consensus        70 d~~~~~~~~~~~~~~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~-~~~r~~il~~~~~~~~~~~~~~~~~i  139 (478)
                      |++..          +....|+|||       ||||++|  |||+-++++.++ .+.+..+|+..++++  .++.++++ 
T Consensus       802 Dgls~----------~~s~~VFViGATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrkF--kLdedVdL-  868 (953)
T KOG0736|consen  802 DGLSD----------SSSQDVFVIGATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRKF--KLDEDVDL-  868 (953)
T ss_pred             hcccC----------CCCCceEEEecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHHHc--cCCCCcCH-
Confidence            98753          3577899999       9999999  999999999995 788899999999999  88999998 


Q ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHHHHHhh--------------cCCCCCCCHHHHHHHHHHhhhhcc
Q psy450          140 EYLSSVTS-GFERHDLTCLVRLSVKNKMLKQ--------------GINKRDLQKEDFQQIYDDLQSRYS  193 (478)
Q Consensus       140 ~~la~~t~-G~s~~di~~l~~~a~~~a~~~~--------------~~~~~~it~~d~~~a~~~~~~~~~  193 (478)
                      .++|+.++ .|||||+..+|..|+..|+.+.              ......++++||.++.++++|+.+
T Consensus       869 ~eiAk~cp~~~TGADlYsLCSdA~l~AikR~i~~ie~g~~~~~e~~~~~v~V~~eDflks~~~l~PSvS  937 (953)
T KOG0736|consen  869 VEIAKKCPPNMTGADLYSLCSDAMLAAIKRTIHDIESGTISEEEQESSSVRVTMEDFLKSAKRLQPSVS  937 (953)
T ss_pred             HHHHhhCCcCCchhHHHHHHHHHHHHHHHHHHHHhhhccccccccCCceEEEEHHHHHHHHHhcCCccc
Confidence            99999876 8999999999999999998651              123567999999999999988754

>KOG0738|consensus

Probab=99.94  E-value=6.6e-27  Score=221.64  Aligned_cols=171  Identities=19%  Similarity=0.248  Sum_probs=143.4

Q ss_pred             HHHHhhHHHHHHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-----------hhHhhhcccccccc
Q psy450            6 SFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-----------YVYFKLCSFDSVNV   74 (478)
Q Consensus         6 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-----------~~~~~l~~~d~~~~   74 (478)
                      -||||--    +.|.|+|=|+.. +-||-+|+ .|+.++|++|||||||+||++|           +.+.||.+||++..
T Consensus       272 TFFNVSs----stltSKwRGeSE-KlvRlLFe-mARfyAPStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~  345 (491)
T KOG0738|consen  272 TFFNVSS----STLTSKWRGESE-KLVRLLFE-MARFYAPSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQG  345 (491)
T ss_pred             eEEEech----hhhhhhhccchH-HHHHHHHH-HHHHhCCceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhcccc
Confidence            3666543    234555555554 49999999 9999999999999999999987           89999999998764


Q ss_pred             ccccchhhhccCCCcEEEEe-------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcC
Q psy450           75 KSNETKDQQCKQQHKKKLVL-------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTS  147 (478)
Q Consensus        75 ~~~~~~~~~~~~~~~v~via-------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~  147 (478)
                      ..        +...-|.|+|       ||+|++|||.++|+||+||.++|..+|+..++..  ++..++++ +.|++.++
T Consensus       346 t~--------e~~k~VmVLAATN~PWdiDEAlrRRlEKRIyIPLP~~~~R~~Li~~~l~~~--~~~~~~~~-~~lae~~e  414 (491)
T KOG0738|consen  346 TL--------ENSKVVMVLAATNFPWDIDEALRRRLEKRIYIPLPDAEARSALIKILLRSV--ELDDPVNL-EDLAERSE  414 (491)
T ss_pred             cc--------ccceeEEEEeccCCCcchHHHHHHHHhhheeeeCCCHHHHHHHHHHhhccc--cCCCCccH-HHHHHHhc
Confidence            32        2234588888       9999999999999999999999999999999887  67788887 99999999


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhh--------------cCCCCCCCHHHHHHHHHHhhhhcc
Q psy450          148 GFERHDLTCLVRLSVKNKMLKQ--------------GINKRDLQKEDFQQIYDDLQSRYS  193 (478)
Q Consensus       148 G~s~~di~~l~~~a~~~a~~~~--------------~~~~~~it~~d~~~a~~~~~~~~~  193 (478)
                      ||||+||.++|++|.+.++++.              .....+++..||+.|+..++|+..
T Consensus       415 GySGaDI~nvCreAsm~~mRR~i~g~~~~ei~~lakE~~~~pv~~~Dfe~Al~~v~pSvs  474 (491)
T KOG0738|consen  415 GYSGADITNVCREASMMAMRRKIAGLTPREIRQLAKEEPKMPVTNEDFEEALRKVRPSVS  474 (491)
T ss_pred             CCChHHHHHHHHHHHHHHHHHHHhcCCcHHhhhhhhhccccccchhhHHHHHHHcCcCCC
Confidence            9999999999999999998751              112367999999999999987754

>KOG0732|consensus

Probab=99.94  E-value=3.3e-26  Score=243.35  Aligned_cols=284  Identities=18%  Similarity=0.257  Sum_probs=220.1

Q ss_pred             HHHHhhHHHHHHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccc
Q psy450            6 SFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVK   75 (478)
Q Consensus         6 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~   75 (478)
                      +|+-+.+.|.|    ++|.+++.. ++|.+|+ .|++.+|+|+|+||||.+++.|          +|.++|..||++   
T Consensus       331 sffmrkgaD~l----skwvgEaER-qlrllFe-eA~k~qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGl---  401 (1080)
T KOG0732|consen  331 SFFMRKGADCL----SKWVGEAER-QLRLLFE-EAQKTQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGL---  401 (1080)
T ss_pred             chhhhcCchhh----ccccCcHHH-HHHHHHH-HHhccCceEEeccccccccccccchHHHhhhhHHHHHHHhccCC---
Confidence            46666666665    556666666 9999999 9999999999999999999988          899999999954   


Q ss_pred             cccchhhhccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhc
Q psy450           76 SNETKDQQCKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVT  146 (478)
Q Consensus        76 ~~~~~~~~~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t  146 (478)
                               +.+++|+|||       +|||++|  |||+.++|++|+.+.|.+|+..+.+++.  ......++..+|+.|
T Consensus       402 ---------dsRgqVvvigATnRpda~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~--~~i~~~l~~~la~~t  470 (1080)
T KOG0732|consen  402 ---------DSRGQVVVIGATNRPDAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWE--PPISRELLLWLAEET  470 (1080)
T ss_pred             ---------CCCCceEEEcccCCccccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCC--CCCCHHHHHHHHHhc
Confidence                     7899999999       9999999  9999999999999999999999999984  445566679999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHhh-------------cCCCCCCCHHHHHHHHHHhhhhcccCCCCCCCCCCCccc-ccCc
Q psy450          147 SGFERHDLTCLVRLSVKNKMLKQ-------------GINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWED-IGGL  212 (478)
Q Consensus       147 ~G~s~~di~~l~~~a~~~a~~~~-------------~~~~~~it~~d~~~a~~~~~~~~~~~~~~~~~~~~~~~~-i~g~  212 (478)
                      .||.|+|++.+|.+|+..++.+.             ......+...||..|+..+.|+..+....++.|.-..-- +.+.
T Consensus       471 ~gy~gaDlkaLCTeAal~~~~r~~Pq~y~s~~kl~~d~~~ikV~~~~f~~A~~~i~ps~~R~~~~~s~Pl~~~~~~ll~~  550 (1080)
T KOG0732|consen  471 SGYGGADLKALCTEAALIALRRSFPQIYSSSDKLLIDVALIKVEVRDFVEAMSRITPSSRRSSVIFSRPLSTYLKPLLPF  550 (1080)
T ss_pred             cccchHHHHHHHHHHhhhhhccccCeeecccccccccchhhhhhhHhhhhhhhccCCCCCccccCCCCCCCcceecccch
Confidence            99999999999999999997541             123455888999999999998877765555544321111 2212


Q ss_pred             HHHHHHHH-------------HHHHhhhhhC----CC---CCceEEEeCCCCChHHHHHHHHHHHh-CCcEEEEechhhh
Q psy450          213 SKLKAEIL-------------STFRGVNRTS----GL---KRSGLLLYGPPGTGKTLIAKAVATEC-RMNFLAVKGPELL  271 (478)
Q Consensus       213 ~~~k~~l~-------------~~~~~~~~~~----~~---~~~~iLl~Gp~GtGKT~la~~la~~~-~~~~~~v~~~~l~  271 (478)
                      ......++             +...+.....    ..   ....+++.|..|.|-+++..+|-+.+ +.++.....+.+.
T Consensus       551 ~~~~~~iq~~~~va~~~~k~~e~~~~~v~~~e~~~~i~lic~~~lli~~~~~~g~~~lg~aIlh~~~~~~v~s~~issll  630 (1080)
T KOG0732|consen  551 QDALEDIQGLMDVASSMAKIEEHLKLLVRSFESNFAIRLICRPRLLINGGKGSGQDYLGPAILHRLEGLPVQSLDISSLL  630 (1080)
T ss_pred             HHHHHHhhcchhHHhhhhhHHHHhHHHHHhhhcccchhhhcCcHHhcCCCcccccCcccHHHHHHHhccchHHHHHHHHH
Confidence            22222221             1111111111    11   13458899999999999999998877 6677666767776


Q ss_pred             hhh-hcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCC
Q psy450          272 NKY-IGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR  309 (478)
Q Consensus       272 ~~~-~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~  309 (478)
                      ... .+..+..+..+|..++...||||||-++|.+....
T Consensus       631 ~d~~~~~~~~~iv~i~~eaR~~~psi~~ip~~d~w~~~~  669 (1080)
T KOG0732|consen  631 SDEGTEDLEEEIVHIFMEARKTTPSIVFIPNVDEWARVI  669 (1080)
T ss_pred             hccccccHHHHHHHHHHHHhccCCceeeccchhhhhhcC
Confidence            665 66678889999999999999999999999988543

>KOG0734|consensus

Probab=99.93  E-value=2.5e-26  Score=225.09  Aligned_cols=150  Identities=16%  Similarity=0.182  Sum_probs=138.8

Q ss_pred             HhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCCcE
Q psy450           21 TNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQHKK   90 (478)
Q Consensus        21 ~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v   90 (478)
                      ...|-+..++.+|++|+ .||+.+||||||||||+++++|          .+||+|.+||++            ..+.+|
T Consensus       374 dEm~VGvGArRVRdLF~-aAk~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF------------~qNeGi  440 (752)
T KOG0734|consen  374 DEMFVGVGARRVRDLFA-AAKARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGF------------KQNEGI  440 (752)
T ss_pred             hhhhhcccHHHHHHHHH-HHHhcCCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCc------------CcCCce
Confidence            34566777889999999 9999999999999999999999          589999999954            778899


Q ss_pred             EEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHH
Q psy450           91 KLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLS  161 (478)
Q Consensus        91 ~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a  161 (478)
                      +|||       +|+||.|  |||++|.+|.||...|.+||+.|+++.  .++.++|. +-||+=|.||+|+|++++++.|
T Consensus       441 IvigATNfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki--~~~~~VD~-~iiARGT~GFsGAdLaNlVNqA  517 (752)
T KOG0734|consen  441 IVIGATNFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKI--PLDEDVDP-KIIARGTPGFSGADLANLVNQA  517 (752)
T ss_pred             EEEeccCChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHHhcC--CcccCCCH-hHhccCCCCCchHHHHHHHHHH
Confidence            9999       9999999  999999999999999999999999998  78889998 9999999999999999999999


Q ss_pred             HHHHHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          162 VKNKMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       162 ~~~a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      +.++..+   +...+++.+++.|..++-
T Consensus       518 AlkAa~d---ga~~VtM~~LE~akDrIl  542 (752)
T KOG0734|consen  518 ALKAAVD---GAEMVTMKHLEFAKDRIL  542 (752)
T ss_pred             HHHHHhc---CcccccHHHHhhhhhhee
Confidence            9999755   788999999999998875

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.92  E-value=1.5e-22  Score=220.79  Aligned_cols=370  Identities=16%  Similarity=0.159  Sum_probs=227.8

Q ss_pred             chhhhhHHHHhhhh-cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------------e
Q psy450           29 YHHLNDIVKINLKK-YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------------I   95 (478)
Q Consensus        29 ~~~~~~if~~~a~~-~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------------l   95 (478)
                      +..++.+|+ .++. ..++||||||++.+++.+.-.   ..+|..      ....+...++.+.+||            +
T Consensus       265 e~~lk~ii~-e~~~~~~~~ILfIDEih~l~~~g~~~---~~~d~~------n~Lkp~l~~G~l~~IgaTT~~e~~~~~~~  334 (852)
T TIGR03345       265 ENRLKSVID-EVKASPQPIILFIDEAHTLIGAGGQA---GQGDAA------NLLKPALARGELRTIAATTWAEYKKYFEK  334 (852)
T ss_pred             HHHHHHHHH-HHHhcCCCeEEEEeChHHhccCCCcc---ccccHH------HHhhHHhhCCCeEEEEecCHHHHhhhhhc
Confidence            348999998 7765 468999999999999765210   123310      0112345677899999            7


Q ss_pred             CHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCC--CCCCChhHHHHHHHhcCCCCHH-----HHHHHHHHHHHHHHHh
Q psy450           96 RKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGG--DYGFDASLVEYLSSVTSGFERH-----DLTCLVRLSVKNKMLK  168 (478)
Q Consensus        96 d~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~--~~~~~~~~i~~la~~t~G~s~~-----di~~l~~~a~~~a~~~  168 (478)
                      |||++||| ..|.|+.|+.+++.+||+.+...++.  .+..+.+.+..++..+.+|.+.     .--.++++|+.....+
T Consensus       335 d~AL~rRf-~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~~r~LPDKAIdlldea~a~~~~~  413 (852)
T TIGR03345       335 DPALTRRF-QVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQLPDKAVSLLDTACARVALS  413 (852)
T ss_pred             cHHHHHhC-eEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccccccccCccHHHHHHHHHHHHHHHh
Confidence            99999999 58999999999999998877766532  2334455557777777766432     2233344433322110


Q ss_pred             hcC-----------------------------------------------------------------------------
Q psy450          169 QGI-----------------------------------------------------------------------------  171 (478)
Q Consensus       169 ~~~-----------------------------------------------------------------------------  171 (478)
                      ...                                                                             
T Consensus       414 ~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  493 (852)
T TIGR03345       414 QNATPAALEDLRRRIAALELELDALEREAALGADHDERLAELRAELAALEAELAALEARWQQEKELVEAILALRAELEAD  493 (852)
T ss_pred             ccCCchhHHHHHHHHHHHHHHHHHHhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            000                                                                             


Q ss_pred             -------------------------------CCCCCCHHHHHHHHHHhhhhcccCCCCCC------CCCCCcccccCcHH
Q psy450          172 -------------------------------NKRDLQKEDFQQIYDDLQSRYSDQLDAPS------VPNVSWEDIGGLSK  214 (478)
Q Consensus       172 -------------------------------~~~~it~~d~~~a~~~~~~~~~~~~~~~~------~~~~~~~~i~g~~~  214 (478)
                                                     ....++.+|+...+..+.+.+........      ....--..++|++.
T Consensus       494 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~i~~vv~~~tgip~~~~~~~e~~~l~~l~~~L~~~v~GQ~~  573 (852)
T TIGR03345       494 ADAPADDDAALRAQLAELEAALASAQGEEPLVFPEVDAQAVAEVVADWTGIPVGRMVRDEIEAVLSLPDRLAERVIGQDH  573 (852)
T ss_pred             ccchhhhhHHHHHHHHHHHHHHHHHhhccccccceecHHHHHHHHHHHHCCCchhhchhHHHHHHHHHHHhcCeEcChHH
Confidence                                           00112222222222222221111000000      00111246899999


Q ss_pred             HHHHHHHHHHhhhhhCC--CCCc-eEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh------------hhc
Q psy450          215 LKAEILSTFRGVNRTSG--LKRS-GLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK------------YIG  276 (478)
Q Consensus       215 ~k~~l~~~~~~~~~~~~--~~~~-~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~------------~~g  276 (478)
                      +.+.+.+.+........  .+|. .+||+||||||||++|+++|+.+   ...++.++++++...            |+|
T Consensus       574 Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~~~~~l~g~~~gyvg  653 (852)
T TIGR03345       574 ALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAHTVSRLKGSPPGYVG  653 (852)
T ss_pred             HHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhhhhccccCCCCCccc
Confidence            99999888877643222  2254 48999999999999999999988   457899998877533            333


Q ss_pred             chHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCeEEEEEcCC
Q psy450          277 QSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDVFILGATNR  347 (478)
Q Consensus       277 ~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~vI~ttn~  347 (478)
                      ..+..  .+....+...++||+|||+|.+.+             .+.+.|+..++.-.         +-.+.+||+|||.
T Consensus       654 ~~~~g--~L~~~v~~~p~svvllDEieka~~-------------~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNl  718 (852)
T TIGR03345       654 YGEGG--VLTEAVRRKPYSVVLLDEVEKAHP-------------DVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNA  718 (852)
T ss_pred             ccccc--hHHHHHHhCCCcEEEEechhhcCH-------------HHHHHHHHHhhcceeecCCCcEEeccccEEEEeCCC
Confidence            32211  123344557779999999998763             45666666665322         1246889999985


Q ss_pred             CC-----------------------------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcC--------CCC
Q psy450          348 VD-----------------------------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKF--------KLS  390 (478)
Q Consensus       348 ~~-----------------------------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~--------~~~  390 (478)
                      ..                             .+.|++++  |++ .+.|. |.+.++..+|+...+..+        ++.
T Consensus       719 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEfln--Ri~-iI~F~-pLs~e~l~~Iv~~~L~~l~~rl~~~~gi~  794 (852)
T TIGR03345       719 GSDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLG--RMT-VIPYL-PLDDDVLAAIVRLKLDRIARRLKENHGAE  794 (852)
T ss_pred             chHHHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhc--cee-EEEeC-CCCHHHHHHHHHHHHHHHHHHHHHhcCce
Confidence            21                             14566777  997 66676 579999999997665431        221


Q ss_pred             C---CCCHHHHHHhcCC-CCCHHHHHHHHHHHHHHHHHHHHh
Q psy450          391 D---DVSLDSLVHHFPS-QMSGADIYSICSNAWTRAIRRIIT  428 (478)
Q Consensus       391 ~---~~~~~~la~~~~~-~~sg~di~~l~~~a~~~a~~r~~~  428 (478)
                      -   +.-.+.|+....+ .|-++.+..+++.-...++.+.+-
T Consensus       795 l~i~d~a~~~La~~g~~~~~GAR~L~r~Ie~~i~~~la~~~l  836 (852)
T TIGR03345       795 LVYSEALVEHIVARCTEVESGARNIDAILNQTLLPELSRQIL  836 (852)
T ss_pred             EEECHHHHHHHHHHcCCCCCChHHHHHHHHHHHHHHHHHHHH
Confidence            1   1125566665422 345788888888877777777653

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.

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.91  E-value=2.4e-24  Score=194.16  Aligned_cols=153  Identities=16%  Similarity=0.285  Sum_probs=133.8

Q ss_pred             HHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-----------hhHhhhccccccccccccchhhhccC
Q psy450           18 HLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-----------YVYFKLCSFDSVNVKSNETKDQQCKQ   86 (478)
Q Consensus        18 ~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-----------~~~~~l~~~d~~~~~~~~~~~~~~~~   86 (478)
                      .|++.|-|+... +++.+|+ .|++.+|||+||||+|+|+-.|           +||.||++||++            ..
T Consensus       186 ~liGehVGdgar-~Ihely~-rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi------------~e  251 (368)
T COG1223         186 ELIGEHVGDGAR-RIHELYE-RARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGI------------KE  251 (368)
T ss_pred             HHHHHHhhhHHH-HHHHHHH-HHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCc------------cc
Confidence            467778777776 9999999 9999999999999999999887           799999999965            56


Q ss_pred             CCcEEEEe-------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHH-HH
Q psy450           87 QHKKKLVL-------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTC-LV  158 (478)
Q Consensus        87 ~~~v~via-------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~-l~  158 (478)
                      +.+|+.||       +|||+++||...|+|.+|+.+||.+|++.|.+++  ++..+.++ +.++++|.||||.||.. ++
T Consensus       252 neGVvtIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~--Plpv~~~~-~~~~~~t~g~SgRdikekvl  328 (368)
T COG1223         252 NEGVVTIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKF--PLPVDADL-RYLAAKTKGMSGRDIKEKVL  328 (368)
T ss_pred             CCceEEEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhC--CCccccCH-HHHHHHhCCCCchhHHHHHH
Confidence            77888888       9999999999999999999999999999999999  55666776 99999999999999976 45


Q ss_pred             HHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhh
Q psy450          159 RLSVKNKMLKQGINKRDLQKEDFQQIYDDLQS  190 (478)
Q Consensus       159 ~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~  190 (478)
                      ..|..+++.+   +...++.+|++.|++...+
T Consensus       329 K~aLh~Ai~e---d~e~v~~edie~al~k~r~  357 (368)
T COG1223         329 KTALHRAIAE---DREKVEREDIEKALKKERK  357 (368)
T ss_pred             HHHHHHHHHh---chhhhhHHHHHHHHHhhcc
Confidence            5566666655   6788999999999997543

>KOG0735|consensus

Probab=99.91  E-value=8.1e-25  Score=220.86  Aligned_cols=145  Identities=19%  Similarity=0.204  Sum_probs=129.9

Q ss_pred             hhHHHHHhhHHHHHHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhcccccc
Q psy450            3 YIESFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSV   72 (478)
Q Consensus         3 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~   72 (478)
                      ...+|-|+++||+|+.|++.+     +.++|++|. .|+..+||||||||+|+|+++|          +||++|++||+.
T Consensus       725 ~~~~fisvKGPElL~KyIGaS-----Eq~vR~lF~-rA~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~  798 (952)
T KOG0735|consen  725 SNLRFISVKGPELLSKYIGAS-----EQNVRDLFE-RAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGA  798 (952)
T ss_pred             CCeeEEEecCHHHHHHHhccc-----HHHHHHHHH-HhhccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccc
Confidence            346789999999876555444     459999999 9999999999999999999998          899999999964


Q ss_pred             ccccccchhhhccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHH
Q psy450           73 NVKSNETKDQQCKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLS  143 (478)
Q Consensus        73 ~~~~~~~~~~~~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la  143 (478)
                                  +.-.+|.|+|       ||||++|  |+|+.++.+.|++.+|++|++.+.+..  ....++|+ +.+|
T Consensus       799 ------------Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~--~~~~~vdl-~~~a  863 (952)
T KOG0735|consen  799 ------------EGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSL--LKDTDVDL-ECLA  863 (952)
T ss_pred             ------------cccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhcc--CCccccch-HHHh
Confidence                        4566799999       9999999  999999999999999999999999877  67788998 9999


Q ss_pred             HhcCCCCHHHHHHHHHHHHHHHHHh
Q psy450          144 SVTSGFERHDLTCLVRLSVKNKMLK  168 (478)
Q Consensus       144 ~~t~G~s~~di~~l~~~a~~~a~~~  168 (478)
                      ..|+||||+|+..++-.|...+.++
T Consensus       864 ~~T~g~tgADlq~ll~~A~l~avh~  888 (952)
T KOG0735|consen  864 QKTDGFTGADLQSLLYNAQLAAVHE  888 (952)
T ss_pred             hhcCCCchhhHHHHHHHHHHHHHHH
Confidence            9999999999999999999888754

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.91  E-value=3.2e-22  Score=219.32  Aligned_cols=377  Identities=15%  Similarity=0.170  Sum_probs=243.4

Q ss_pred             hhccCccchhhhhHHHHhhhhcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-------
Q psy450           22 NYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-------   94 (478)
Q Consensus        22 ~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-------   94 (478)
                      +|.++. +..++.+|+ .++...++||||||+|.|++.+...   ..+|..      ....+...++.+.+||       
T Consensus       251 ~~~ge~-e~rl~~i~~-~~~~~~~~ILfiDEih~l~~~g~~~---g~~~~a------~lLkp~l~rg~l~~IgaTt~~ey  319 (821)
T CHL00095        251 KYRGEF-EERLKRIFD-EIQENNNIILVIDEVHTLIGAGAAE---GAIDAA------NILKPALARGELQCIGATTLDEY  319 (821)
T ss_pred             CCccHH-HHHHHHHHH-HHHhcCCeEEEEecHHHHhcCCCCC---CcccHH------HHhHHHHhCCCcEEEEeCCHHHH
Confidence            444444 448999999 8888889999999999999765211   112210      0112335577889999       


Q ss_pred             -----eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCC--CCCCChhHHHHHHHhcCCCCHH-----HHHHHHHHHH
Q psy450           95 -----IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGG--DYGFDASLVEYLSSVTSGFERH-----DLTCLVRLSV  162 (478)
Q Consensus        95 -----ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~--~~~~~~~~i~~la~~t~G~s~~-----di~~l~~~a~  162 (478)
                           .||++.|||. .|.++.|+.++...|++.....+..  .+..+.+.+..++..+.+|.+.     .--.++++|+
T Consensus       320 ~~~ie~D~aL~rRf~-~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~~r~lPdkaidlld~a~  398 (821)
T CHL00095        320 RKHIEKDPALERRFQ-PVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRFLPDKAIDLLDEAG  398 (821)
T ss_pred             HHHHhcCHHHHhcce-EEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCccccCchHHHHHHHHHH
Confidence                 6999999995 6899999999999999876644321  2234555668888888777543     2334455544


Q ss_pred             HHHHHhh------------------------------------------------------------cCCCCCCCHHHHH
Q psy450          163 KNKMLKQ------------------------------------------------------------GINKRDLQKEDFQ  182 (478)
Q Consensus       163 ~~a~~~~------------------------------------------------------------~~~~~~it~~d~~  182 (478)
                      .......                                                            ......++.+|+.
T Consensus       399 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~i~  478 (821)
T CHL00095        399 SRVRLINSRLPPAARELDKELREILKDKDEAIREQDFETAKQLRDREMEVRAQIAAIIQSKKTEEEKRLEVPVVTEEDIA  478 (821)
T ss_pred             HHHHhhccCCchhHHHHHHHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCccCHHHHH
Confidence            4321110                                                            0011457777777


Q ss_pred             HHHHHhhhhcccCCCCCC------CCCCCcccccCcHHHHHHHHHHHHhhhhh---CCCCCceEEEeCCCCChHHHHHHH
Q psy450          183 QIYDDLQSRYSDQLDAPS------VPNVSWEDIGGLSKLKAEILSTFRGVNRT---SGLKRSGLLLYGPPGTGKTLIAKA  253 (478)
Q Consensus       183 ~a~~~~~~~~~~~~~~~~------~~~~~~~~i~g~~~~k~~l~~~~~~~~~~---~~~~~~~iLl~Gp~GtGKT~la~~  253 (478)
                      ..+..+.+.+........      ....--+.++|++.+++.+...+......   +..+..++||+||+|||||++|++
T Consensus       479 ~~~~~~tgip~~~~~~~~~~~l~~l~~~L~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~  558 (821)
T CHL00095        479 EIVSAWTGIPVNKLTKSESEKLLHMEETLHKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKA  558 (821)
T ss_pred             HHHHHHHCCCchhhchhHHHHHHHHHHHhcCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHH
Confidence            777776654332221110      01112356899999999999888765432   222234589999999999999999


Q ss_pred             HHHHh---CCcEEEEechhhhhh------------hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchh
Q psy450          254 VATEC---RMNFLAVKGPELLNK------------YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGV  318 (478)
Q Consensus       254 la~~~---~~~~~~v~~~~l~~~------------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~  318 (478)
                      +|+.+   +.+++.++++++...            |+|..+  ...+....+....+|++|||+|++.            
T Consensus       559 LA~~l~~~~~~~~~~d~s~~~~~~~~~~l~g~~~gyvg~~~--~~~l~~~~~~~p~~VvllDeieka~------------  624 (821)
T CHL00095        559 LASYFFGSEDAMIRLDMSEYMEKHTVSKLIGSPPGYVGYNE--GGQLTEAVRKKPYTVVLFDEIEKAH------------  624 (821)
T ss_pred             HHHHhcCCccceEEEEchhccccccHHHhcCCCCcccCcCc--cchHHHHHHhCCCeEEEECChhhCC------------
Confidence            99987   467889988776321            222211  1234444555666899999999987            


Q ss_pred             HHHHHHHHHHhhcCCC---------CCCCeEEEEEcCCCCC-------------------------------------CC
Q psy450          319 MDRVVSQLLAEMDGVH---------TSQDVFILGATNRVDL-------------------------------------LD  352 (478)
Q Consensus       319 ~~~~~~~ll~~l~~~~---------~~~~v~vI~ttn~~~~-------------------------------------ld  352 (478)
                       ..+.+.|+..++...         +..+.++|+|||....                                     +.
T Consensus       625 -~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~g~~~i~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~  703 (821)
T CHL00095        625 -PDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNLGSKVIETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFR  703 (821)
T ss_pred             -HHHHHHHHHHhccCceecCCCcEEecCceEEEEeCCcchHHHHhhccccCCcccccccccccHHHHHHHHHHHHHHhcC
Confidence             356778888777422         1346889999885311                                     23


Q ss_pred             ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcC-------CCCCC---CCHHHHHHh-cCCCCCHHHHHHHHHHHHHH
Q psy450          353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKF-------KLSDD---VSLDSLVHH-FPSQMSGADIYSICSNAWTR  421 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~-------~~~~~---~~~~~la~~-~~~~~sg~di~~l~~~a~~~  421 (478)
                      |.++.  |+|.++.|.. .+.++..+|+...+..+       ++.-.   .-.+.|+.. +...|-++.|+.+++.-...
T Consensus       704 pefln--Rid~ii~F~p-L~~~~l~~Iv~~~l~~l~~rl~~~~i~l~~~~~~~~~La~~~~~~~~GAR~l~r~i~~~i~~  780 (821)
T CHL00095        704 PEFLN--RLDEIIVFRQ-LTKNDVWEIAEIMLKNLFKRLNEQGIQLEVTERIKTLLIEEGYNPLYGARPLRRAIMRLLED  780 (821)
T ss_pred             HHHhc--cCCeEEEeCC-CCHHHHHHHHHHHHHHHHHHHHHCCcEEEECHHHHHHHHHhcCCCCCChhhHHHHHHHHHHH
Confidence            45666  9999998874 79999999987666432       11111   115556664 22345667888888887777


Q ss_pred             HHHHHHh
Q psy450          422 AIRRIIT  428 (478)
Q Consensus       422 a~~r~~~  428 (478)
                      ++.+.+-
T Consensus       781 ~l~~~~l  787 (821)
T CHL00095        781 PLAEEVL  787 (821)
T ss_pred             HHHHHHH
Confidence            7776653

>KOG0739|consensus

Probab=99.91  E-value=1.6e-24  Score=198.72  Aligned_cols=144  Identities=15%  Similarity=0.248  Sum_probs=121.8

Q ss_pred             HHHHhhHHHHHHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccc
Q psy450            6 SFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVK   75 (478)
Q Consensus         6 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~   75 (478)
                      -||++-.-|+    +|+++++... -++.+|. .||+.+|+||||||||++|++|          +.+.+|-+|.++.  
T Consensus       193 TFFSvSSSDL----vSKWmGESEk-LVknLFe-mARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG--  264 (439)
T KOG0739|consen  193 TFFSVSSSDL----VSKWMGESEK-LVKNLFE-MARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVG--  264 (439)
T ss_pred             ceEEeehHHH----HHHHhccHHH-HHHHHHH-HHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccc--
Confidence            3666666554    5555565555 8899999 9999999999999999999987          6778888888753  


Q ss_pred             cccchhhhccCCCcEEEEe-------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCC
Q psy450           76 SNETKDQQCKQQHKKKLVL-------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSG  148 (478)
Q Consensus        76 ~~~~~~~~~~~~~~v~via-------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G  148 (478)
                               ..+.+|+|+|       +|.|++|||+++|+||+|+...|..+++.++...+..+ .+.|+ ++|+..|+|
T Consensus       265 ---------~d~~gvLVLgATNiPw~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhlG~tp~~L-T~~d~-~eL~~kTeG  333 (439)
T KOG0739|consen  265 ---------NDNDGVLVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARARMFKLHLGDTPHVL-TEQDF-KELARKTEG  333 (439)
T ss_pred             ---------cCCCceEEEecCCCchhHHHHHHHHhhcceeccCCcHHHhhhhheeccCCCcccc-chhhH-HHHHhhcCC
Confidence                     3466799999       99999999999999999999999999999998774433 34566 999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHh
Q psy450          149 FERHDLTCLVRLSVKNKMLK  168 (478)
Q Consensus       149 ~s~~di~~l~~~a~~~a~~~  168 (478)
                      |||+||.-+++.|.++.+++
T Consensus       334 ySGsDisivVrDalmePvRk  353 (439)
T KOG0739|consen  334 YSGSDISIVVRDALMEPVRK  353 (439)
T ss_pred             CCcCceEEEehhhhhhhHHH
Confidence            99999999999999988764

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.90  E-value=1.1e-21  Score=215.55  Aligned_cols=381  Identities=15%  Similarity=0.177  Sum_probs=231.0

Q ss_pred             hhccCccchhhhhHHHHhhhhc-CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------
Q psy450           22 NYFATPRYHHLNDIVKINLKKY-NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------   94 (478)
Q Consensus        22 ~~~~~~~~~~~~~if~~~a~~~-~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------   94 (478)
                      +|-++ -+..++.+|+ .+.+. .|+||||||+|.|++.+.-.   ..+|...      ...+...++.+.+||      
T Consensus       245 ~~~g~-~e~~l~~~l~-~~~~~~~~~ILfIDEih~l~~~g~~~---~~~d~~~------~Lk~~l~~g~i~~IgaTt~~e  313 (852)
T TIGR03346       245 KYRGE-FEERLKAVLN-EVTKSEGQIILFIDELHTLVGAGKAE---GAMDAGN------MLKPALARGELHCIGATTLDE  313 (852)
T ss_pred             hhhhh-HHHHHHHHHH-HHHhcCCCeEEEeccHHHhhcCCCCc---chhHHHH------HhchhhhcCceEEEEeCcHHH
Confidence            34443 3448999998 77654 69999999999998644110   0111100      011234567799999      


Q ss_pred             ------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCC--CChhHHHHHHHhcCCCCHH-----HHHHHHHHH
Q psy450           95 ------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYG--FDASLVEYLSSVTSGFERH-----DLTCLVRLS  161 (478)
Q Consensus        95 ------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~--~~~~~i~~la~~t~G~s~~-----di~~l~~~a  161 (478)
                            +|+|+.|||. .|.++.|+.+++.+||+.+...++..+.  ...+.+...+..+.+|...     .--.++++|
T Consensus       314 ~r~~~~~d~al~rRf~-~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~~~d~~i~~~~~ls~~yi~~r~lPdkAidlld~a  392 (852)
T TIGR03346       314 YRKYIEKDAALERRFQ-PVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYITDRFLPDKAIDLIDEA  392 (852)
T ss_pred             HHHHhhcCHHHHhcCC-EEEeCCCCHHHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhccccccccCCchHHHHHHHHH
Confidence                  6999999995 6899999999999999998877643332  2333346666666665432     223333443


Q ss_pred             HHHHHHhhc-----------------------------------------------------------------------
Q psy450          162 VKNKMLKQG-----------------------------------------------------------------------  170 (478)
Q Consensus       162 ~~~a~~~~~-----------------------------------------------------------------------  170 (478)
                      +.....+..                                                                       
T Consensus       393 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  472 (852)
T TIGR03346       393 AARIRMEIDSKPEELDELDRRIIQLEIEREALKKEKDEASKERLEDLEKELAELEEEYADLEEQWKAEKAAIQGIQQIKE  472 (852)
T ss_pred             HHHHHhhccCCchhHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            332211000                                                                       


Q ss_pred             --------------------------------------------------CCCCCCCHHHHHHHHHHhhhhcccCCCCC-
Q psy450          171 --------------------------------------------------INKRDLQKEDFQQIYDDLQSRYSDQLDAP-  199 (478)
Q Consensus       171 --------------------------------------------------~~~~~it~~d~~~a~~~~~~~~~~~~~~~-  199 (478)
                                                                        .....++.+|+...+..+.+......... 
T Consensus       473 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~v~~~~i~~v~~~~tgip~~~~~~~e  552 (852)
T TIGR03346       473 EIEQVRLELEQAEREGDLAKAAELQYGKLPELEKRLQAAEAKLGEETKPRLLREEVTAEEIAEVVSRWTGIPVSKMLEGE  552 (852)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHhhhcchHHHHHHHHHHHHHhhhccccccccCCcCHHHHHHHHHHhcCCCcccccHHH
Confidence                                                              00012333333333333221111100000 


Q ss_pred             -----CCCCCCcccccCcHHHHHHHHHHHHhhhhh---CCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEech
Q psy450          200 -----SVPNVSWEDIGGLSKLKAEILSTFRGVNRT---SGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP  268 (478)
Q Consensus       200 -----~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~---~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~  268 (478)
                           .....-...++|++.+.+.+...+......   +..+...+||+||+|||||++|++++..+   +.+++.++++
T Consensus       553 ~~~l~~l~~~l~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s  632 (852)
T TIGR03346       553 REKLLHMEEVLHERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMS  632 (852)
T ss_pred             HHHHHHHHHHhhcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEech
Confidence                 000112356899999999999888776432   22234568999999999999999999987   4689999988


Q ss_pred             hhhhh-----hhcchHH-----HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC----
Q psy450          269 ELLNK-----YIGQSEE-----NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH----  334 (478)
Q Consensus       269 ~l~~~-----~~g~~~~-----~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~----  334 (478)
                      ++...     ..|....     .-..+....+....+||+|||++.+.             ..+.+.|+..++.-.    
T Consensus       633 ~~~~~~~~~~l~g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~-------------~~v~~~Ll~~l~~g~l~d~  699 (852)
T TIGR03346       633 EYMEKHSVARLIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAH-------------PDVFNVLLQVLDDGRLTDG  699 (852)
T ss_pred             hhcccchHHHhcCCCCCccCcccccHHHHHHHcCCCcEEEEeccccCC-------------HHHHHHHHHHHhcCceecC
Confidence            76432     1111100     01123333344556799999999886             356677777765321    


Q ss_pred             -----CCCCeEEEEEcCCCC-------------------------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          335 -----TSQDVFILGATNRVD-------------------------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       335 -----~~~~v~vI~ttn~~~-------------------------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                           +-.+.+||+|||...                         .+.|.|..  |++..+.|. |++.++..+|+...+
T Consensus       700 ~g~~vd~rn~iiI~TSn~g~~~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~~--Rid~IivF~-PL~~e~l~~I~~l~L  776 (852)
T TIGR03346       700 QGRTVDFRNTVIIMTSNLGSQFIQELAGGDDYEEMREAVMEVLRAHFRPEFLN--RIDEIVVFH-PLGREQIARIVEIQL  776 (852)
T ss_pred             CCeEEecCCcEEEEeCCcchHhHhhhcccccHHHHHHHHHHHHHhhcCHHHhc--CcCeEEecC-CcCHHHHHHHHHHHH
Confidence                 124678999999731                         13456666  999888887 479999999986655


Q ss_pred             hc-------CCCCCCCC---HHHHHHh-cCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          385 RK-------FKLSDDVS---LDSLVHH-FPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       385 ~~-------~~~~~~~~---~~~la~~-~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      ..       .++...++   .+.|+.+ +...+..+.++++++......+.+.+-.+
T Consensus       777 ~~l~~~l~~~~~~l~i~~~a~~~L~~~~~~~~~gaR~L~~~i~~~i~~~l~~~~l~~  833 (852)
T TIGR03346       777 GRLRKRLAERKITLELSDAALDFLAEAGYDPVYGARPLKRAIQREIENPLAKKILAG  833 (852)
T ss_pred             HHHHHHHHHCCCeecCCHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHHHHHHHHhC
Confidence            32       12221222   5556664 22346678999999999988888776443

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.

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

Probab=99.90  E-value=2.4e-22  Score=210.55  Aligned_cols=383  Identities=14%  Similarity=0.178  Sum_probs=252.3

Q ss_pred             HHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-
Q psy450           16 LSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-   94 (478)
Q Consensus        16 l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-   94 (478)
                      -.......|.+.=+..++.|.+ ..++..+.||||||++.|.+...-.. - .||..+.      .++...++.+-+|| 
T Consensus       235 g~LvAGakyRGeFEeRlk~vl~-ev~~~~~vILFIDEiHtiVGAG~~~G-~-a~DAaNi------LKPaLARGeL~~IGA  305 (786)
T COG0542         235 GSLVAGAKYRGEFEERLKAVLK-EVEKSKNVILFIDEIHTIVGAGATEG-G-AMDAANL------LKPALARGELRCIGA  305 (786)
T ss_pred             HHHhccccccCcHHHHHHHHHH-HHhcCCCeEEEEechhhhcCCCcccc-c-ccchhhh------hHHHHhcCCeEEEEe
Confidence            3334444455555568999999 88888899999999999999873222 1 5776432      34667899999999 


Q ss_pred             -----------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCC--CChhHHHHHHHhcC-----CCCHHHHHH
Q psy450           95 -----------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYG--FDASLVEYLSSVTS-----GFERHDLTC  156 (478)
Q Consensus        95 -----------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~--~~~~~i~~la~~t~-----G~s~~di~~  156 (478)
                                 -|+||.||| ..|.+..|+.++...||+..-..++..+.  ...+-+...+..++     .|-+.---.
T Consensus       306 TT~~EYRk~iEKD~AL~RRF-Q~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D~Al~aAv~LS~RYI~dR~LPDKAID  384 (786)
T COG0542         306 TTLDEYRKYIEKDAALERRF-QKVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRFLPDKAID  384 (786)
T ss_pred             ccHHHHHHHhhhchHHHhcC-ceeeCCCCCHHHHHHHHHHHHHHHHHccCceecHHHHHHHHHHHHhhcccCCCCchHHH
Confidence                       799999999 77999999999999999998877643332  12222244443332     333333344


Q ss_pred             HHHHHHHHHHHhhc---------------------------------------------------CCCCCCCHHHHHHHH
Q psy450          157 LVRLSVKNKMLKQG---------------------------------------------------INKRDLQKEDFQQIY  185 (478)
Q Consensus       157 l~~~a~~~a~~~~~---------------------------------------------------~~~~~it~~d~~~a~  185 (478)
                      ++++|+.....+..                                                   ... .++++++...+
T Consensus       385 LiDeA~a~~~l~~~~p~~l~~~~~~~~~l~~e~~~~~~e~~~~~k~~~~~~~~~~~~~~~~~~~~~~~-~v~~~~Ia~vv  463 (786)
T COG0542         385 LLDEAGARVRLEIDKPEELDELERELAQLEIEKEALEREQDEKEKKLIDEIIKLKEGRIPELEKELEA-EVDEDDIAEVV  463 (786)
T ss_pred             HHHHHHHHHHhcccCCcchhHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhHHHHHhh-ccCHHHHHHHH
Confidence            44444443322100                                                   001 15556666666


Q ss_pred             HHhhhhcccCCCCC------CCCCCCcccccCcHHHHHHHHHHHHhhhhhCC---CCCceEEEeCCCCChHHHHHHHHHH
Q psy450          186 DDLQSRYSDQLDAP------SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSG---LKRSGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       186 ~~~~~~~~~~~~~~------~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~---~~~~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      ..+.+.+.......      ..+..--..++|++++...+...+.......+   .|..++||.||+|+|||.+|+++|.
T Consensus       464 ~~~TgIPv~~l~~~e~~kll~le~~L~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~  543 (786)
T COG0542         464 ARWTGIPVAKLLEDEKEKLLNLERRLKKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAE  543 (786)
T ss_pred             HHHHCCChhhhchhhHHHHHHHHHHHhcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHH
Confidence            66654433221100      11222235689999999999999887744333   2345688899999999999999999


Q ss_pred             HhC---CcEEEEechhhhhh------------hhcchHHHHHHHHHHh-HhCCCeEEEEcCCccccCCCCCCCCCchhHH
Q psy450          257 ECR---MNFLAVKGPELLNK------------YIGQSEENIRNVFLKA-RSAAPCVVFFDELDSLAPRRGQEDQSSGVMD  320 (478)
Q Consensus       257 ~~~---~~~~~v~~~~l~~~------------~~g~~~~~~~~~~~~a-~~~~p~il~iDeid~l~~~~~~~~~~~~~~~  320 (478)
                      .+.   ..++.++++++..+            |+|..+.   ..+..+ ++..+|||+||||++..|             
T Consensus       544 ~Lfg~e~aliR~DMSEy~EkHsVSrLIGaPPGYVGyeeG---G~LTEaVRr~PySViLlDEIEKAHp-------------  607 (786)
T COG0542         544 ALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEG---GQLTEAVRRKPYSVILLDEIEKAHP-------------  607 (786)
T ss_pred             HhcCCCccceeechHHHHHHHHHHHHhCCCCCCceeccc---cchhHhhhcCCCeEEEechhhhcCH-------------
Confidence            996   78999999999754            4444442   234344 555679999999999884             


Q ss_pred             HHHHHHHHhhcCCCC---------CCCeEEEEEcCCC----------------------------CCCCccccCCCCCCe
Q psy450          321 RVVSQLLAEMDGVHT---------SQDVFILGATNRV----------------------------DLLDPAILRPGRLDK  363 (478)
Q Consensus       321 ~~~~~ll~~l~~~~~---------~~~v~vI~ttn~~----------------------------~~ld~~l~~~~Rf~~  363 (478)
                      .+++.|++.+|.-.-         -.+.+||+|||--                            ..+.|+++.  |+|.
T Consensus       608 dV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLN--Rid~  685 (786)
T COG0542         608 DVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLN--RIDE  685 (786)
T ss_pred             HHHHHHHHHhcCCeeecCCCCEEecceeEEEEecccchHHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHh--hccc
Confidence            688899988875322         2368899999831                            124567777  9999


Q ss_pred             EEEeCCCCCHHHHHHHHHHHHhcC-------CCCCCC---CHHHHHHhcCC-CCCHHHHHHHHHHHHHHHHHHHHh
Q psy450          364 SLYVGLYEDRISQLGVLKAVVRKF-------KLSDDV---SLDSLVHHFPS-QMSGADIYSICSNAWTRAIRRIIT  428 (478)
Q Consensus       364 ~i~~~~pp~~~~r~~il~~~~~~~-------~~~~~~---~~~~la~~~~~-~~sg~di~~l~~~a~~~a~~r~~~  428 (478)
                      .|.|.. .+.+...+|+..++..+       ++.-.+   -.+.++.+..+ .|-++-++.+++.-....+.+.+-
T Consensus       686 II~F~~-L~~~~l~~Iv~~~L~~l~~~L~~~~i~l~~s~~a~~~l~~~gyd~~~GARpL~R~Iq~~i~~~La~~iL  760 (786)
T COG0542         686 IIPFNP-LSKEVLERIVDLQLNRLAKRLAERGITLELSDEAKDFLAEKGYDPEYGARPLRRAIQQEIEDPLADEIL  760 (786)
T ss_pred             EEeccC-CCHHHHHHHHHHHHHHHHHHHHhCCceEEECHHHHHHHHHhccCCCcCchHHHHHHHHHHHHHHHHHHH
Confidence            998874 78999999987766432       222111   14555554422 345566777777766666666543

>KOG0652|consensus

Probab=99.89  E-value=4.9e-23  Score=185.75  Aligned_cols=164  Identities=13%  Similarity=0.170  Sum_probs=142.8

Q ss_pred             HHHHhhHHHHHHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhcccccc
Q psy450            6 SFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSV   72 (478)
Q Consensus         6 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~   72 (478)
                      .|...-+||+..+++    |+ .+.-+|+-|. .|++.+|+||||||+|+|+.+|             ..-.+|+++|  
T Consensus       232 TFLKLAgPQLVQMfI----Gd-GAkLVRDAFa-LAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLD--  303 (424)
T KOG0652|consen  232 TFLKLAGPQLVQMFI----GD-GAKLVRDAFA-LAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLD--  303 (424)
T ss_pred             hHHHhcchHHHhhhh----cc-hHHHHHHHHH-HhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhc--
Confidence            366666777766544    33 3558999999 9999999999999999999988             2345677777  


Q ss_pred             ccccccchhhhccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHH
Q psy450           73 NVKSNETKDQQCKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLS  143 (478)
Q Consensus        73 ~~~~~~~~~~~~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la  143 (478)
                                |++++..|-|||       +|||++|  |.|+.|+||.|+++.|.+|++.+.+++  ....++.| ++||
T Consensus       304 ----------GFss~~~vKviAATNRvDiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKM--nv~~DvNf-eELa  370 (424)
T KOG0652|consen  304 ----------GFSSDDRVKVIAATNRVDILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKM--NVSDDVNF-EELA  370 (424)
T ss_pred             ----------CCCCccceEEEeecccccccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhc--CCCCCCCH-HHHh
Confidence                      457888999999       9999999  999999999999999999999999999  78899999 9999


Q ss_pred             HhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhcc
Q psy450          144 SVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYS  193 (478)
Q Consensus       144 ~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~~  193 (478)
                      ..|++|+|++++.+|-+|.+-+.++   +...++++||..++.+++..+.
T Consensus       371 RsTddFNGAQcKAVcVEAGMiALRr---~atev~heDfmegI~eVqakKk  417 (424)
T KOG0652|consen  371 RSTDDFNGAQCKAVCVEAGMIALRR---GATEVTHEDFMEGILEVQAKKK  417 (424)
T ss_pred             hcccccCchhheeeehhhhHHHHhc---ccccccHHHHHHHHHHHHHhhh
Confidence            9999999999999999999999876   6788999999999998875543

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.89  E-value=8.5e-22  Score=188.58  Aligned_cols=227  Identities=21%  Similarity=0.294  Sum_probs=164.8

Q ss_pred             cccccCcHHHHHHHHHHHHhhh-----hhCCCC----CceEEEeCCCCChHHHHHHHHHHHh-------CCcEEEEechh
Q psy450          206 WEDIGGLSKLKAEILSTFRGVN-----RTSGLK----RSGLLLYGPPGTGKTLIAKAVATEC-------RMNFLAVKGPE  269 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~~-----~~~~~~----~~~iLl~Gp~GtGKT~la~~la~~~-------~~~~~~v~~~~  269 (478)
                      +++++|++.+|+++.+.+.++.     ...|..    +.+++|+||||||||++|+++|+.+       ..+++.+++++
T Consensus         5 l~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~   84 (261)
T TIGR02881         5 LSRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERAD   84 (261)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHH
Confidence            5789999999999999888762     123332    4579999999999999999999875       24788899999


Q ss_pred             hhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          270 LLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       270 l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      +.+.+.|++...+.++|..+.   ++||||||+|.|....     ........++.++..|+..  ..++++|+++...+
T Consensus        85 l~~~~~g~~~~~~~~~~~~a~---~~VL~IDE~~~L~~~~-----~~~~~~~~i~~Ll~~~e~~--~~~~~vila~~~~~  154 (261)
T TIGR02881        85 LVGEYIGHTAQKTREVIKKAL---GGVLFIDEAYSLARGG-----EKDFGKEAIDTLVKGMEDN--RNEFVLILAGYSDE  154 (261)
T ss_pred             hhhhhccchHHHHHHHHHhcc---CCEEEEechhhhccCC-----ccchHHHHHHHHHHHHhcc--CCCEEEEecCCcch
Confidence            999999999999999998875   3599999999997421     1122356778888888753  34566666554322


Q ss_pred             -----CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC-HHHHHHh-------c-CCCCCHHHHHHHH
Q psy450          350 -----LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS-LDSLVHH-------F-PSQMSGADIYSIC  415 (478)
Q Consensus       350 -----~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~-~~~la~~-------~-~~~~sg~di~~l~  415 (478)
                           .++|++++  ||+..+.++. ++.+++.+|++.++......-+.+ +..++..       . ...-+++.+++++
T Consensus       155 ~~~~~~~~p~L~s--Rf~~~i~f~~-~~~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~~~~gn~R~~~n~~  231 (261)
T TIGR02881       155 MDYFLSLNPGLRS--RFPISIDFPD-YTVEELMEIAERMVKEREYKLTEEAKWKLREHLYKVDQLSSREFSNARYVRNII  231 (261)
T ss_pred             hHHHHhcChHHHh--ccceEEEECC-CCHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHhccCCCCchHHHHHHHH
Confidence                 36889999  9999999986 799999999999987655332222 3333221       1 1123678999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccccHHHH
Q psy450          416 SNAWTRAIRRIITSAPQVKSAPVIVTMDDF  445 (478)
Q Consensus       416 ~~a~~~a~~r~~~~~~~~~~~~~~it~~d~  445 (478)
                      ..|..+...|..........+-..++.+||
T Consensus       232 e~a~~~~~~r~~~~~~~~~~~~~~l~~~d~  261 (261)
T TIGR02881       232 EKAIRRQAVRLLDKSDYSKEDLMLLKKEDL  261 (261)
T ss_pred             HHHHHHHHHHHhccCCCCHHHHhccChhhC
Confidence            999999988887654333333444555553

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.88  E-value=1.4e-20  Score=206.17  Aligned_cols=208  Identities=16%  Similarity=0.229  Sum_probs=135.2

Q ss_pred             cccccCcHHHHHHHHHHHHhhhhh---CCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh-----
Q psy450          206 WEDIGGLSKLKAEILSTFRGVNRT---SGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY-----  274 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~~~~---~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~-----  274 (478)
                      ...++|++.+.+.+...+......   ++.+...++|+||+|||||++|+++++.+   +.+++.++++++....     
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~~~~~~L  646 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKHSVSRL  646 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhhhhHHHH
Confidence            456899999999999888766422   12222468999999999999999999887   4578999998774321     


Q ss_pred             hcchHHH----HHHHHHHh-HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCeE
Q psy450          275 IGQSEEN----IRNVFLKA-RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDVF  340 (478)
Q Consensus       275 ~g~~~~~----~~~~~~~a-~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~  340 (478)
                      .|.....    -...+..+ +....+||+|||++.+.+             .+.+.|+..++.-.         +..+.+
T Consensus       647 iG~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~-------------~v~~~Ll~ile~g~l~d~~gr~vd~rn~i  713 (857)
T PRK10865        647 VGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHP-------------DVFNILLQVLDDGRLTDGQGRTVDFRNTV  713 (857)
T ss_pred             hCCCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCH-------------HHHHHHHHHHhhCceecCCceEEeecccE
Confidence            1111000    01122233 334448999999998863             45666666665321         123567


Q ss_pred             EEEEcCCC-------------------------CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcC-------C
Q psy450          341 ILGATNRV-------------------------DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKF-------K  388 (478)
Q Consensus       341 vI~ttn~~-------------------------~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~-------~  388 (478)
                      ||+|||..                         ..+.|+|+.  |++..+.|.+ ++.++...|++.++..+       +
T Consensus       714 iI~TSN~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PELln--Rld~iivF~P-L~~edl~~Iv~~~L~~l~~rl~~~g  790 (857)
T PRK10865        714 VIMTSNLGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFIN--RIDEVVVFHP-LGEQHIASIAQIQLQRLYKRLEERG  790 (857)
T ss_pred             EEEeCCcchHHHHHhccccchHHHHHHHHHHHcccccHHHHH--hCCeeEecCC-CCHHHHHHHHHHHHHHHHHHHHhCC
Confidence            89999862                         124567777  9998888874 78888888887766442       2


Q ss_pred             CCCCCC---HHHHHHhc-CCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          389 LSDDVS---LDSLVHHF-PSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       389 ~~~~~~---~~~la~~~-~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      +.-.++   ++.|+.+. ...|..+.|+.+++.-....+.+.+-.
T Consensus       791 i~l~is~~al~~L~~~gy~~~~GARpL~r~I~~~i~~~la~~iL~  835 (857)
T PRK10865        791 YEIHISDEALKLLSENGYDPVYGARPLKRAIQQQIENPLAQQILS  835 (857)
T ss_pred             CcCcCCHHHHHHHHHcCCCccCChHHHHHHHHHHHHHHHHHHHHc
Confidence            222222   44455432 122445788888888888877776543

>CHL00181 cbbX CbbX; Provisional

Probab=99.88  E-value=3.1e-21  Score=185.83  Aligned_cols=231  Identities=21%  Similarity=0.265  Sum_probs=166.8

Q ss_pred             cccccCcHHHHHHHHHHHHhh-----hhhCCCC----CceEEEeCCCCChHHHHHHHHHHHhC-------CcEEEEechh
Q psy450          206 WEDIGGLSKLKAEILSTFRGV-----NRTSGLK----RSGLLLYGPPGTGKTLIAKAVATECR-------MNFLAVKGPE  269 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~-----~~~~~~~----~~~iLl~Gp~GtGKT~la~~la~~~~-------~~~~~v~~~~  269 (478)
                      +++++|++++|+++.+++.+.     ....|..    +.+++|+||||||||++|+++|+.+.       .+++.++.++
T Consensus        22 ~~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~  101 (287)
T CHL00181         22 DEELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDD  101 (287)
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHH
Confidence            347999999999999887654     1223332    44699999999999999999998762       3689999999


Q ss_pred             hhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC-
Q psy450          270 LLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV-  348 (478)
Q Consensus       270 l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~-  348 (478)
                      +.+.+.|.++.....+++.+..   +||||||+|.+...++    ......+.+..|+..|+..  ..+++||++++.. 
T Consensus       102 l~~~~~g~~~~~~~~~l~~a~g---gVLfIDE~~~l~~~~~----~~~~~~e~~~~L~~~me~~--~~~~~vI~ag~~~~  172 (287)
T CHL00181        102 LVGQYIGHTAPKTKEVLKKAMG---GVLFIDEAYYLYKPDN----ERDYGSEAIEILLQVMENQ--RDDLVVIFAGYKDR  172 (287)
T ss_pred             HHHHHhccchHHHHHHHHHccC---CEEEEEccchhccCCC----ccchHHHHHHHHHHHHhcC--CCCEEEEEeCCcHH
Confidence            9999999988888888887643   5999999999974321    1223367788888888743  3567788877642 


Q ss_pred             ----CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC-HHHHHHh----c-CCCCC-HHHHHHHHHH
Q psy450          349 ----DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS-LDSLVHH----F-PSQMS-GADIYSICSN  417 (478)
Q Consensus       349 ----~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~-~~~la~~----~-~~~~s-g~di~~l~~~  417 (478)
                          ..++|++++  ||+..++|+. ++.+++..|++.++++....-+.+ ...+...    . ...|. ++++++++..
T Consensus       173 ~~~~~~~np~L~s--R~~~~i~F~~-~t~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~~GNaR~vrn~ve~  249 (287)
T CHL00181        173 MDKFYESNPGLSS--RIANHVDFPD-YTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANARSVRNALDR  249 (287)
T ss_pred             HHHHHhcCHHHHH--hCCceEEcCC-cCHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence                134689999  9999999996 699999999999997655332221 2222221    1 12344 8999999999


Q ss_pred             HHHHHHHHHHhcCCC--CCCCCccccHHHHHhc
Q psy450          418 AWTRAIRRIITSAPQ--VKSAPVIVTMDDFLGA  448 (478)
Q Consensus       418 a~~~a~~r~~~~~~~--~~~~~~~it~~d~~~A  448 (478)
                      |..+...|...+...  +..+-..++.+|+.+.
T Consensus       250 ~~~~~~~r~~~~~~~~~~~~~l~~~~~~d~~~~  282 (287)
T CHL00181        250 ARMRQANRIFESGGRVLTKADLVTIEAEDILKS  282 (287)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHhCCCHHHHhHH
Confidence            999999998765321  1223445666666543

>KOG0728|consensus

Probab=99.88  E-value=2.2e-22  Score=180.56  Aligned_cols=153  Identities=12%  Similarity=0.194  Sum_probs=134.6

Q ss_pred             HHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhh
Q psy450           17 SHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQ   83 (478)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~   83 (478)
                      +.|+.+|+++... .+|.+|- .|++++|+|||.||||+|+.+|             ..-.+|+++|++           
T Consensus       215 selvqk~igegsr-mvrelfv-marehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgf-----------  281 (404)
T KOG0728|consen  215 SELVQKYIGEGSR-MVRELFV-MAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGF-----------  281 (404)
T ss_pred             HHHHHHHhhhhHH-HHHHHHH-HHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhcccc-----------
Confidence            4578899998877 9999998 9999999999999999999988             234567778854           


Q ss_pred             ccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHH
Q psy450           84 CKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDL  154 (478)
Q Consensus        84 ~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di  154 (478)
                       ....++-||-       +|||++|  |.|+.|+||.|+.+.|.+||+.+.+++  ++...+++ +.+|+...|.||+++
T Consensus       282 -eatknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsrkm--nl~rgi~l-~kiaekm~gasgaev  357 (404)
T KOG0728|consen  282 -EATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKM--NLTRGINL-RKIAEKMPGASGAEV  357 (404)
T ss_pred             -ccccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhh--chhcccCH-HHHHHhCCCCccchh
Confidence             5566666655       9999999  999999999999999999999999999  67778888 999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          155 TCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       155 ~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      +.+|.+|.+.+.++   ....+|++||+-|...+-
T Consensus       358 k~vcteagm~alre---rrvhvtqedfemav~kvm  389 (404)
T KOG0728|consen  358 KGVCTEAGMYALRE---RRVHVTQEDFEMAVAKVM  389 (404)
T ss_pred             hhhhhhhhHHHHHH---hhccccHHHHHHHHHHHH
Confidence            99999999999876   467899999999988764

>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=99.87  E-value=8e-22  Score=168.63  Aligned_cols=130  Identities=42%  Similarity=0.763  Sum_probs=116.3

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCC-CeEEEEcCCccccCCCCCCCCC
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAA-PCVVFFDELDSLAPRRGQEDQS  315 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~-p~il~iDeid~l~~~~~~~~~~  315 (478)
                      +||+||||||||++++.+|+.++.+++.+++.++.+.+.+.+.+.+..+|..+.... |+||+|||+|.+.+..  ....
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~--~~~~   78 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKLFPKS--QPSS   78 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGTSHHC--STSS
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceeeeeccchhccccc--cccc
Confidence            689999999999999999999999999999999998889999999999999998887 9999999999999876  3334


Q ss_pred             chhHHHHHHHHHHhhcCCCCC-CCeEEEEEcCCCCCCCccccCCCCCCeEEEeCC
Q psy450          316 SGVMDRVVSQLLAEMDGVHTS-QDVFILGATNRVDLLDPAILRPGRLDKSLYVGL  369 (478)
Q Consensus       316 ~~~~~~~~~~ll~~l~~~~~~-~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~  369 (478)
                      ......+.+.|+..++..... .+++||+|||.++.+++++++ +||+..+++++
T Consensus        79 ~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i~~~l~~-~rf~~~i~~~~  132 (132)
T PF00004_consen   79 SSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPDKIDPALLR-SRFDRRIEFPL  132 (132)
T ss_dssp             SHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGGGSCHHHHS-TTSEEEEEE-S
T ss_pred             ccccccccceeeecccccccccccceeEEeeCChhhCCHhHHh-CCCcEEEEcCC
Confidence            555678889999999987665 569999999999999999997 79999999864

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 ....

>KOG0737|consensus

Probab=99.87  E-value=1.4e-22  Score=192.39  Aligned_cols=144  Identities=17%  Similarity=0.236  Sum_probs=125.5

Q ss_pred             HHHHhhHHHHHHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccc
Q psy450            6 SFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVK   75 (478)
Q Consensus         6 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~   75 (478)
                      +|-|+..-.+++    ++|+++.. -++.+|. .|.+.+||||||||+|++.+.|          ..++|...||++.. 
T Consensus       154 ~fInv~~s~lt~----KWfgE~eK-lv~AvFs-lAsKl~P~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s-  226 (386)
T KOG0737|consen  154 NFINVSVSNLTS----KWFGEAQK-LVKAVFS-LASKLQPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSS-  226 (386)
T ss_pred             Ccceeeccccch----hhHHHHHH-HHHHHHh-hhhhcCcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccC-
Confidence            455555444444    77766655 8999999 9999999999999999999877          68899999998754 


Q ss_pred             cccchhhhccCCCcEEEEe-------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCC
Q psy450           76 SNETKDQQCKQQHKKKLVL-------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSG  148 (478)
Q Consensus        76 ~~~~~~~~~~~~~~v~via-------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G  148 (478)
                               +.+..|+|+|       +|.|+.||+.+.++|++|+..+|.+||+.+++..  ++..++|+ ..+|..|+|
T Consensus       227 ---------~~~~rVlVlgATNRP~DlDeAiiRR~p~rf~V~lP~~~qR~kILkviLk~e--~~e~~vD~-~~iA~~t~G  294 (386)
T KOG0737|consen  227 ---------KDSERVLVLGATNRPFDLDEAIIRRLPRRFHVGLPDAEQRRKILKVILKKE--KLEDDVDL-DEIAQMTEG  294 (386)
T ss_pred             ---------CCCceEEEEeCCCCCccHHHHHHHhCcceeeeCCCchhhHHHHHHHHhccc--ccCcccCH-HHHHHhcCC
Confidence                     3455699999       9999999999999999999999999999999887  77889998 999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHh
Q psy450          149 FERHDLTCLVRLSVKNKMLK  168 (478)
Q Consensus       149 ~s~~di~~l~~~a~~~a~~~  168 (478)
                      |||+||+++|+.|+...+++
T Consensus       295 ySGSDLkelC~~Aa~~~ire  314 (386)
T KOG0737|consen  295 YSGSDLKELCRLAALRPIRE  314 (386)
T ss_pred             CcHHHHHHHHHHHhHhHHHH
Confidence            99999999999999988754

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.87  E-value=2.3e-22  Score=205.79  Aligned_cols=161  Identities=17%  Similarity=0.207  Sum_probs=142.5

Q ss_pred             HHHhhHHHHHHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccc
Q psy450            7 FHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVN   73 (478)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~   73 (478)
                      |+++-+.+++.     .|-+.-++.+|++|. .|++.+|||+||||+|+++..|             .+|++|.+||++ 
T Consensus       211 Ff~iSGS~FVe-----mfVGvGAsRVRdLF~-qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF-  283 (596)
T COG0465         211 FFSISGSDFVE-----MFVGVGASRVRDLFE-QAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGF-  283 (596)
T ss_pred             ceeccchhhhh-----hhcCCCcHHHHHHHH-HhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccC-
Confidence            44444444444     455667889999999 9999999999999999999998             799999999965 


Q ss_pred             cccccchhhhccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHH
Q psy450           74 VKSNETKDQQCKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSS  144 (478)
Q Consensus        74 ~~~~~~~~~~~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~  144 (478)
                                 ..+..|+|+|       +||||+|  |||+.|.++.||-..|.+|++.|.++.  +++.++++ ..+|+
T Consensus       284 -----------~~~~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~--~l~~~Vdl-~~iAr  349 (596)
T COG0465         284 -----------GGNEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNK--PLAEDVDL-KKIAR  349 (596)
T ss_pred             -----------CCCCceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcC--CCCCcCCH-HHHhh
Confidence                       5677899999       9999999  999999999999999999999999888  77889998 88999


Q ss_pred             hcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhh
Q psy450          145 VTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       145 ~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      .|.||+|+|+.+++++|+..+.++   +...+++.||..|..++-..
T Consensus       350 ~tpGfsGAdL~nl~NEAal~aar~---n~~~i~~~~i~ea~drv~~G  393 (596)
T COG0465         350 GTPGFSGADLANLLNEAALLAARR---NKKEITMRDIEEAIDRVIAG  393 (596)
T ss_pred             hCCCcccchHhhhHHHHHHHHHHh---cCeeEeccchHHHHHHHhcC
Confidence            999999999999999999999876   67889999999999988643

>KOG0727|consensus

Probab=99.87  E-value=8e-22  Score=177.17  Aligned_cols=152  Identities=14%  Similarity=0.230  Sum_probs=135.4

Q ss_pred             HHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhc
Q psy450           18 HLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQC   84 (478)
Q Consensus        18 ~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~   84 (478)
                      .++.+|.|+.-. .+|++|+ .|++++|+||||||+|+|+.+|             ++-.+|++||++            
T Consensus       224 efvqkylgegpr-mvrdvfr-lakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgf------------  289 (408)
T KOG0727|consen  224 EFVQKYLGEGPR-MVRDVFR-LAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGF------------  289 (408)
T ss_pred             HHHHHHhccCcH-HHHHHHH-HHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCc------------
Confidence            456677777665 9999999 9999999999999999999988             567788899954            


Q ss_pred             cCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHH
Q psy450           85 KQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLT  155 (478)
Q Consensus        85 ~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~  155 (478)
                      +...+|-||.       +|||++|  |.|+.|+||+||..+++-++...++++  .++.++|+ +.+..+.+..||+||.
T Consensus       290 dq~~nvkvimatnradtldpallrpgrldrkiefplpdrrqkrlvf~titskm--~ls~~vdl-e~~v~rpdkis~adi~  366 (408)
T KOG0727|consen  290 DQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKM--NLSDEVDL-EDLVARPDKISGADIN  366 (408)
T ss_pred             CcccceEEEEecCcccccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcc--cCCcccCH-HHHhcCccccchhhHH
Confidence            6667777776       9999999  999999999999999999999999999  88999998 9999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          156 CLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       156 ~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      .+|++|.+.+.++   +...+...||+++.....
T Consensus       367 aicqeagm~avr~---nryvvl~kd~e~ay~~~v  397 (408)
T KOG0727|consen  367 AICQEAGMLAVRE---NRYVVLQKDFEKAYKTVV  397 (408)
T ss_pred             HHHHHHhHHHHHh---cceeeeHHHHHHHHHhhc
Confidence            9999999999876   677889999999988664

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.87  E-value=1.1e-20  Score=182.37  Aligned_cols=229  Identities=19%  Similarity=0.256  Sum_probs=167.6

Q ss_pred             cccCcHHHHHHHHHHHHhh-----hhhCCCC----CceEEEeCCCCChHHHHHHHHHHHhC-------CcEEEEechhhh
Q psy450          208 DIGGLSKLKAEILSTFRGV-----NRTSGLK----RSGLLLYGPPGTGKTLIAKAVATECR-------MNFLAVKGPELL  271 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~-----~~~~~~~----~~~iLl~Gp~GtGKT~la~~la~~~~-------~~~~~v~~~~l~  271 (478)
                      +++|++++|+++.++..+.     ....|..    ..+++|+||||||||++|+++|+.+.       .+++.++++++.
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~  102 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLV  102 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHh
Confidence            6899999999999887764     2223333    34899999999999999999988763       379999999999


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC--C
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV--D  349 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~--~  349 (478)
                      +.+.|.++..+..+|+.+..   ++|||||++.+.+.+.    ......++...|+..|+.  ...+++||++++..  +
T Consensus       103 ~~~~g~~~~~~~~~~~~a~~---gvL~iDEi~~L~~~~~----~~~~~~~~~~~Ll~~le~--~~~~~~vI~a~~~~~~~  173 (284)
T TIGR02880       103 GQYIGHTAPKTKEILKRAMG---GVLFIDEAYYLYRPDN----ERDYGQEAIEILLQVMEN--QRDDLVVILAGYKDRMD  173 (284)
T ss_pred             HhhcccchHHHHHHHHHccC---cEEEEechhhhccCCC----ccchHHHHHHHHHHHHhc--CCCCEEEEEeCCcHHHH
Confidence            99999998888888887743   6999999999964321    122345677888888874  34567888877643  2


Q ss_pred             ---CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC-HHHHHHhc-----CCC-CCHHHHHHHHHHHH
Q psy450          350 ---LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS-LDSLVHHF-----PSQ-MSGADIYSICSNAW  419 (478)
Q Consensus       350 ---~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~-~~~la~~~-----~~~-~sg~di~~l~~~a~  419 (478)
                         .++|++++  ||...+.++. ++.+++..|++.++++....-+.+ ...+..+.     ... -+++++++++..+.
T Consensus       174 ~~~~~np~L~s--R~~~~i~fp~-l~~edl~~I~~~~l~~~~~~l~~~a~~~L~~~l~~~~~~~~~GN~R~lrn~ve~~~  250 (284)
T TIGR02880       174 SFFESNPGFSS--RVAHHVDFPD-YSEAELLVIAGLMLKEQQYRFSAEAEEAFADYIALRRTQPHFANARSIRNAIDRAR  250 (284)
T ss_pred             HHHhhCHHHHh--hCCcEEEeCC-cCHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHH
Confidence               25899999  9999999986 689999999999998765332222 33333321     022 25799999999999


Q ss_pred             HHHHHHHHhcCCC--CCCCCccccHHHHHhc
Q psy450          420 TRAIRRIITSAPQ--VKSAPVIVTMDDFLGA  448 (478)
Q Consensus       420 ~~a~~r~~~~~~~--~~~~~~~it~~d~~~A  448 (478)
                      .+...|...+...  ...+-..||.+|+.++
T Consensus       251 ~~~~~r~~~~~~~~~~~~~~~~~~~~d~~~~  281 (284)
T TIGR02880       251 LRQANRLFCDLDRVLDKSDLETIDPEDLLAS  281 (284)
T ss_pred             HHHHHHHhcCcCCCCCHHHHhCCCHHHHhhc
Confidence            9999988754321  2233445777777655

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.

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=99.86  E-value=1.2e-21  Score=204.77  Aligned_cols=165  Identities=18%  Similarity=0.283  Sum_probs=142.7

Q ss_pred             HHHHhhHHHHHHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccc
Q psy450            6 SFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVK   75 (478)
Q Consensus         6 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~   75 (478)
                      +|.++..+    +|+++|++++.. +++.+|. .|++.+||||||||+|++++.|          +++++|.+||++   
T Consensus       303 ~fi~v~~~----~l~sk~vGesek-~ir~~F~-~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~---  373 (494)
T COG0464         303 RFISVKGS----ELLSKWVGESEK-NIRELFE-KARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGI---  373 (494)
T ss_pred             eEEEeeCH----HHhccccchHHH-HHHHHHH-HHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCC---
Confidence            45556555    456666666666 9999999 9999999999999999999866          799999999965   


Q ss_pred             cccchhhhccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhc
Q psy450           76 SNETKDQQCKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVT  146 (478)
Q Consensus        76 ~~~~~~~~~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t  146 (478)
                               ....+|+|||       +|||++|  |||+.|+|++||.++|.+||+.++......+..++++ +.+++.|
T Consensus       374 ---------e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~-~~l~~~t  443 (494)
T COG0464         374 ---------EKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDL-EELAEIT  443 (494)
T ss_pred             ---------CccCceEEEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhH-HHHHHHh
Confidence                     5566799999       9999999  9999999999999999999999998654345678888 9999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhh
Q psy450          147 SGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       147 ~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      +||+|+||..+|++|+..+..+..  ...++.+||..|++...|+
T Consensus       444 ~~~sgadi~~i~~ea~~~~~~~~~--~~~~~~~~~~~a~~~~~p~  486 (494)
T COG0464         444 EGYSGADIAALVREAALEALREAR--RREVTLDDFLDALKKIKPS  486 (494)
T ss_pred             cCCCHHHHHHHHHHHHHHHHHHhc--cCCccHHHHHHHHHhcCCC
Confidence            999999999999999999986521  5689999999999997765

>KOG0731|consensus

Probab=99.86  E-value=1.2e-21  Score=203.84  Aligned_cols=161  Identities=16%  Similarity=0.198  Sum_probs=141.2

Q ss_pred             HHHhhHHHHHHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch--------------hhHhhhcccccc
Q psy450            7 FHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK--------------YVYFKLCSFDSV   72 (478)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r--------------~~~~~l~~~d~~   72 (478)
                      |+++=..|++.++..     ..+..+|++|. .||+++|||+||||||++++.|              .+||+|.+||++
T Consensus       372 F~svSGSEFvE~~~g-----~~asrvr~lf~-~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf  445 (774)
T KOG0731|consen  372 FFSVSGSEFVEMFVG-----VGASRVRDLFP-LARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGF  445 (774)
T ss_pred             eeeechHHHHHHhcc-----cchHHHHHHHH-HhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCC
Confidence            666777777766543     33679999999 9999999999999999999987              489999999965


Q ss_pred             ccccccchhhhccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCC-CCChhHHHHH
Q psy450           73 NVKSNETKDQQCKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDY-GFDASLVEYL  142 (478)
Q Consensus        73 ~~~~~~~~~~~~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~-~~~~~~i~~l  142 (478)
                                  ....+|+|+|       +|+|++|  |||+.|++++||..+|.+|++.|+++.  .+ ..++++ ..+
T Consensus       446 ------------~~~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~--~~~~e~~dl-~~~  510 (774)
T KOG0731|consen  446 ------------ETSKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKK--KLDDEDVDL-SKL  510 (774)
T ss_pred             ------------cCCCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhcc--CCCcchhhH-HHH
Confidence                        5668899999       9999999  999999999999999999999999888  45 366777 669


Q ss_pred             HHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhh
Q psy450          143 SSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       143 a~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      |.+|+||+|+||.++|++|+..+.++   ....|+..||+.|+++....
T Consensus       511 a~~t~gf~gadl~n~~neaa~~a~r~---~~~~i~~~~~~~a~~Rvi~G  556 (774)
T KOG0731|consen  511 ASLTPGFSGADLANLCNEAALLAARK---GLREIGTKDLEYAIERVIAG  556 (774)
T ss_pred             HhcCCCCcHHHHHhhhhHHHHHHHHh---ccCccchhhHHHHHHHHhcc
Confidence            99999999999999999999999876   67889999999999977644

>KOG0726|consensus

Probab=99.86  E-value=6.8e-22  Score=180.99  Aligned_cols=154  Identities=13%  Similarity=0.197  Sum_probs=135.3

Q ss_pred             HHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhh
Q psy450           17 SHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQ   83 (478)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~   83 (478)
                      +.|+.+|.++.-. -+|.+|+ .|.+++|+|+||||||+++.+|             ..-.+|+++|+            
T Consensus       253 seLiQkylGdGpk-lvRqlF~-vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldG------------  318 (440)
T KOG0726|consen  253 SELIQKYLGDGPK-LVRELFR-VAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDG------------  318 (440)
T ss_pred             HHHHHHHhccchH-HHHHHHH-HHHhcCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccC------------
Confidence            4567788887766 8999999 9999999999999999999988             23466777884            


Q ss_pred             ccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHH
Q psy450           84 CKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDL  154 (478)
Q Consensus        84 ~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di  154 (478)
                      +++++.|-||-       +|||+.|  |.|+.|+|+.||...++.|+..+++++  .+..++.+ +.+....+.+||+||
T Consensus       319 FdsrgDvKvimATnrie~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs~M--tl~~dVnl-e~li~~kddlSGAdI  395 (440)
T KOG0726|consen  319 FDSRGDVKVIMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTSRM--TLAEDVNL-EELIMTKDDLSGADI  395 (440)
T ss_pred             ccccCCeEEEEecccccccCHhhcCCCccccccccCCCchhhhceeEEEeeccc--chhccccH-HHHhhcccccccccH
Confidence            57788887776       9999999  999999999999999999999999999  88889998 998888899999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhh
Q psy450          155 TCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQS  190 (478)
Q Consensus       155 ~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~  190 (478)
                      +++|.+|...+.++   ..-.++++||..|.+.+--
T Consensus       396 kAictEaGllAlRe---rRm~vt~~DF~ka~e~V~~  428 (440)
T KOG0726|consen  396 KAICTEAGLLALRE---RRMKVTMEDFKKAKEKVLY  428 (440)
T ss_pred             HHHHHHHhHHHHHH---HHhhccHHHHHHHHHHHHH
Confidence            99999999999876   3567999999999887643

>KOG0743|consensus

Probab=99.85  E-value=2e-20  Score=182.59  Aligned_cols=213  Identities=23%  Similarity=0.382  Sum_probs=157.8

Q ss_pred             CCcccccCcHHHHHHHHHHHHhh------hhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhc
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGV------NRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIG  276 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~------~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g  276 (478)
                      .+|+.++-..+.|+.+.+-+..+      ..+.|.+ .+|.|||||||||||+++.|+|+.++..++-++.++.     +
T Consensus       198 stF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v-----~  272 (457)
T KOG0743|consen  198 STFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEV-----K  272 (457)
T ss_pred             CCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccc-----c
Confidence            78999999999999988877766      3456777 8899999999999999999999999999998887654     2


Q ss_pred             chHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC----c-hhHHHHHHHHHHhhcCCCCCC--CeEEEEEcCCCC
Q psy450          277 QSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS----S-GVMDRVVSQLLAEMDGVHTSQ--DVFILGATNRVD  349 (478)
Q Consensus       277 ~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~----~-~~~~~~~~~ll~~l~~~~~~~--~v~vI~ttn~~~  349 (478)
                      .... ++.++......  +||+|.|||.-+.-++.....    . ....-.++.||+.+||+....  ..+||.|||+++
T Consensus       273 ~n~d-Lr~LL~~t~~k--SIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~E  349 (457)
T KOG0743|consen  273 LDSD-LRHLLLATPNK--SILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKE  349 (457)
T ss_pred             CcHH-HHHHHHhCCCC--cEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChh
Confidence            2333 77777666544  699999999876432211111    1 011245788999999998876  689999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhc-CCCCCHHHHHHHHHH---HHHHHHHH
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHF-PSQMSGADIYSICSN---AWTRAIRR  425 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~-~~~~sg~di~~l~~~---a~~~a~~r  425 (478)
                      .|||||+||||+|.+|+++. ++.+....+++.++..-.  +..-+.++.+.. ....|++|+...+..   .+..++++
T Consensus       350 kLDPALlRpGRmDmhI~mgy-Ctf~~fK~La~nYL~~~~--~h~L~~eie~l~~~~~~tPA~V~e~lm~~~~dad~~lk~  426 (457)
T KOG0743|consen  350 KLDPALLRPGRMDMHIYMGY-CTFEAFKTLASNYLGIEE--DHRLFDEIERLIEETEVTPAQVAEELMKNKNDADVALKG  426 (457)
T ss_pred             hcCHhhcCCCcceeEEEcCC-CCHHHHHHHHHHhcCCCC--CcchhHHHHHHhhcCccCHHHHHHHHhhccccHHHHHHH
Confidence            99999999999999999997 899988888888775422  233355554432 123689988755422   34455555


Q ss_pred             HH
Q psy450          426 II  427 (478)
Q Consensus       426 ~~  427 (478)
                      ..
T Consensus       427 Lv  428 (457)
T KOG0743|consen  427 LV  428 (457)
T ss_pred             HH
Confidence            44

>KOG0744|consensus

Probab=99.85  E-value=2.2e-21  Score=180.17  Aligned_cols=230  Identities=26%  Similarity=0.360  Sum_probs=171.8

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhh--CCCC------CceEEEeCCCCChHHHHHHHHHHHhC---------CcEEEEec
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRT--SGLK------RSGLLLYGPPGTGKTLIAKAVATECR---------MNFLAVKG  267 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~--~~~~------~~~iLl~Gp~GtGKT~la~~la~~~~---------~~~~~v~~  267 (478)
                      -|+.++--...|++|..+......-  .+..      .+-+|+|||||||||+|++++|+.+.         ..++++++
T Consensus       140 lWEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins  219 (423)
T KOG0744|consen  140 LWESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS  219 (423)
T ss_pred             hHHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh
Confidence            3788888888999988876655221  1111      45689999999999999999999883         35789999


Q ss_pred             hhhhhhhhcchHHHHHHHHHHhHh-----CCCeEEEEcCCccccCCCCCC--CCCchhHHHHHHHHHHhhcCCCCCCCeE
Q psy450          268 PELLNKYIGQSEENIRNVFLKARS-----AAPCVVFFDELDSLAPRRGQE--DQSSGVMDRVVSQLLAEMDGVHTSQDVF  340 (478)
Q Consensus       268 ~~l~~~~~g~~~~~~~~~~~~a~~-----~~p~il~iDeid~l~~~~~~~--~~~~~~~~~~~~~ll~~l~~~~~~~~v~  340 (478)
                      ..+.++|.+++.+.+.++|++...     ..-..++|||++++...|.+.  .......-|++++++.++|.+...++|+
T Consensus       220 hsLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~Nvl  299 (423)
T KOG0744|consen  220 HSLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNVL  299 (423)
T ss_pred             hHHHHHHHhhhhhHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCCEE
Confidence            999999999999999999988753     222456799999998665221  2222233589999999999999999999


Q ss_pred             EEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCC---C--C-------------CCCCHHHHHHhc
Q psy450          341 ILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFK---L--S-------------DDVSLDSLVHHF  402 (478)
Q Consensus       341 vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~---~--~-------------~~~~~~~la~~~  402 (478)
                      +++|+|-.+.+|.++..  |-|.+.+++. |+.+.+.+|++.++..+-   +  .             .+.....++...
T Consensus       300 iL~TSNl~~siD~AfVD--RADi~~yVG~-Pt~~ai~~IlkscieEL~~~gIi~~~~~s~~~~~~i~~~~~~~~~~~~~~  376 (423)
T KOG0744|consen  300 ILATSNLTDSIDVAFVD--RADIVFYVGP-PTAEAIYEILKSCIEELISSGIILFHQRSTGVKEFIKYQKALRNILIELS  376 (423)
T ss_pred             EEeccchHHHHHHHhhh--HhhheeecCC-ccHHHHHHHHHHHHHHHHhcCeeeeeccchhhhHHhHhhHhHHHHHHHHh
Confidence            99999999999999999  9999999996 799999999998875431   1  0             011133344444


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhch
Q psy450          403 PSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGAC  449 (478)
Q Consensus       403 ~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~  449 (478)
                      +.|.+|+-|+.+=-.|.    ...        ....+++.++|..|+
T Consensus       377 ~~gLSGRtlrkLP~Lah----a~y--------~~~~~v~~~~fl~al  411 (423)
T KOG0744|consen  377 TVGLSGRTLRKLPLLAH----AEY--------FRTFTVDLSNFLLAL  411 (423)
T ss_pred             hcCCccchHhhhhHHHH----Hhc--------cCCCccChHHHHHHH
Confidence            57888887776533222    222        124579999998883

>KOG0742|consensus

Probab=99.85  E-value=2.1e-20  Score=178.47  Aligned_cols=211  Identities=22%  Similarity=0.306  Sum_probs=158.4

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCC--CCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcch
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSG--LKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQS  278 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~--~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~  278 (478)
                      .++..+++++.......++..+...-.....  .+-++|+||||||||||+.|+-||...|..+-.+.+.+.... -.+.
T Consensus       349 ~gk~pl~~ViL~psLe~Rie~lA~aTaNTK~h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAPl-G~qa  427 (630)
T KOG0742|consen  349 RGKDPLEGVILHPSLEKRIEDLAIATANTKKHQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAPL-GAQA  427 (630)
T ss_pred             cCCCCcCCeecCHHHHHHHHHHHHHhcccccccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCcccc-chHH
Confidence            3455688888888888888876655432221  125789999999999999999999999999888877665322 2345


Q ss_pred             HHHHHHHHHHhHhCCC-eEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccC
Q psy450          279 EENIRNVFLKARSAAP-CVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILR  357 (478)
Q Consensus       279 ~~~~~~~~~~a~~~~p-~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~  357 (478)
                      ...++++|+.+++... -+|||||+|.+...|..... +...+..++.||-.-.  ....+++++.+||+|..+|.++-.
T Consensus       428 VTkiH~lFDWakkS~rGLllFIDEADAFLceRnktym-SEaqRsaLNAlLfRTG--dqSrdivLvlAtNrpgdlDsAV~D  504 (630)
T KOG0742|consen  428 VTKIHKLFDWAKKSRRGLLLFIDEADAFLCERNKTYM-SEAQRSALNALLFRTG--DQSRDIVLVLATNRPGDLDSAVND  504 (630)
T ss_pred             HHHHHHHHHHHhhcccceEEEehhhHHHHHHhchhhh-cHHHHHHHHHHHHHhc--ccccceEEEeccCCccchhHHHHh
Confidence            6678999999987654 47789999999988764433 3344677788764432  245679999999999999999999


Q ss_pred             CCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCC-----------------------CCC----HHHHHHhcCCCCCHHH
Q psy450          358 PGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSD-----------------------DVS----LDSLVHHFPSQMSGAD  410 (478)
Q Consensus       358 ~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~-----------------------~~~----~~~la~~~~~~~sg~d  410 (478)
                        |+|..++||+ |..++|.++|..++.+.-...                       ..+    +.+.|+++ +||||++
T Consensus       505 --Ride~veFpL-PGeEERfkll~lYlnkyi~~~~~~~~~~~~~~lfkk~sQ~i~l~~~~t~~~~~EaAkkT-eGfSGRE  580 (630)
T KOG0742|consen  505 --RIDEVVEFPL-PGEEERFKLLNLYLNKYILKPATSGKPGKWSHLFKKESQRIKLAGFDTGRKCSEAAKKT-EGFSGRE  580 (630)
T ss_pred             --hhhheeecCC-CChHHHHHHHHHHHHHHhcCcCCCCCCchhhHHHhhhhheeeeccchHHHHHHHHHHhc-cCCcHHH
Confidence              9999999999 699999999988886432110                       111    45566666 8999999


Q ss_pred             HHHHHHHHH
Q psy450          411 IYSICSNAW  419 (478)
Q Consensus       411 i~~l~~~a~  419 (478)
                      |..++....
T Consensus       581 iakLva~vQ  589 (630)
T KOG0742|consen  581 IAKLVASVQ  589 (630)
T ss_pred             HHHHHHHHH
Confidence            999876544

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.85  E-value=5.3e-21  Score=195.58  Aligned_cols=155  Identities=10%  Similarity=0.107  Sum_probs=130.5

Q ss_pred             HHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-----------hhHhhhccccccccccccchhhhcc
Q psy450           17 SHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-----------YVYFKLCSFDSVNVKSNETKDQQCK   85 (478)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-----------~~~~~l~~~d~~~~~~~~~~~~~~~   85 (478)
                      ..++++|.+++.. +++.+|+ .|+..+||||||||+|.+++.+           +++++++.|+              .
T Consensus       293 ~~l~~~~vGese~-~l~~~f~-~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~--------------~  356 (489)
T CHL00195        293 GKLFGGIVGESES-RMRQMIR-IAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLS--------------E  356 (489)
T ss_pred             HHhcccccChHHH-HHHHHHH-HHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHh--------------c
Confidence            3466777777655 9999999 9999999999999999998642           5667777777              2


Q ss_pred             CCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHH
Q psy450           86 QQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTC  156 (478)
Q Consensus        86 ~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~  156 (478)
                      ...+|+|||       +|||++|  |||+.++|++|+.++|.+||+.++.+.......+.++ +.+|+.|+||||+||+.
T Consensus       357 ~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl-~~La~~T~GfSGAdI~~  435 (489)
T CHL00195        357 KKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDI-KKLSKLSNKFSGAEIEQ  435 (489)
T ss_pred             CCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCH-HHHHhhcCCCCHHHHHH
Confidence            356788888       9999999  9999999999999999999999998763222246677 99999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhc
Q psy450          157 LVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRY  192 (478)
Q Consensus       157 l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~  192 (478)
                      +|.+|+..+..+    ..+++.+||..|+..+.|..
T Consensus       436 lv~eA~~~A~~~----~~~lt~~dl~~a~~~~~Pls  467 (489)
T CHL00195        436 SIIEAMYIAFYE----KREFTTDDILLALKQFIPLA  467 (489)
T ss_pred             HHHHHHHHHHHc----CCCcCHHHHHHHHHhcCCCc
Confidence            999999988743    56799999999999998753

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

Probab=99.85  E-value=1.5e-20  Score=188.41  Aligned_cols=154  Identities=15%  Similarity=0.244  Sum_probs=131.8

Q ss_pred             HHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhc
Q psy450           18 HLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQC   84 (478)
Q Consensus        18 ~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~   84 (478)
                      .++++|.++... .++.+|. .|+..+||||||||+|+++.+|             .+.+++++||++            
T Consensus       214 ~l~~k~~ge~~~-~lr~lf~-~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~------------  279 (398)
T PTZ00454        214 EFVQKYLGEGPR-MVRDVFR-LARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGF------------  279 (398)
T ss_pred             HHHHHhcchhHH-HHHHHHH-HHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhcc------------
Confidence            345666666544 8999999 9999999999999999998654             466778888854            


Q ss_pred             cCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHH
Q psy450           85 KQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLT  155 (478)
Q Consensus        85 ~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~  155 (478)
                      ....+|+||+       +|||++|  |||+.|+|+.|+.++|.+||+.++.++  .+..++++ ..++..|+||||+||.
T Consensus       280 ~~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~--~l~~dvd~-~~la~~t~g~sgaDI~  356 (398)
T PTZ00454        280 DQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKM--NLSEEVDL-EDFVSRPEKISAADIA  356 (398)
T ss_pred             CCCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcC--CCCcccCH-HHHHHHcCCCCHHHHH
Confidence            4455677777       9999999  999999999999999999999999887  66778888 9999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhh
Q psy450          156 CLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       156 ~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      .+|++|...++++   +...++.+||..|+..+...
T Consensus       357 ~l~~eA~~~A~r~---~~~~i~~~df~~A~~~v~~~  389 (398)
T PTZ00454        357 AICQEAGMQAVRK---NRYVILPKDFEKGYKTVVRK  389 (398)
T ss_pred             HHHHHHHHHHHHc---CCCccCHHHHHHHHHHHHhc
Confidence            9999999999865   45689999999999987543

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.83  E-value=4.2e-20  Score=205.12  Aligned_cols=155  Identities=10%  Similarity=0.005  Sum_probs=127.9

Q ss_pred             ccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----hhHhhhccccccccccccchhhhccCCCcEEEEe-----
Q psy450           24 FATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-----   94 (478)
Q Consensus        24 ~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-----   94 (478)
                      +....+..|+.+|+ .|++++||||||||||+|+..+    .+++++.+||+...         .....+|+|||     
T Consensus      1713 ~~~e~~~rIr~lFe-lARk~SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~---------~~s~~~VIVIAATNRP 1782 (2281)
T CHL00206       1713 MPKIDRFYITLQFE-LAKAMSPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCE---------RCSTRNILVIASTHIP 1782 (2281)
T ss_pred             hhhhhHHHHHHHHH-HHHHCCCeEEEEEchhhcCCCccceehHHHHHHHhccccc---------cCCCCCEEEEEeCCCc
Confidence            34445557999999 9999999999999999999864    47899999996421         12456799999     


Q ss_pred             --eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCC-hhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhh
Q psy450           95 --IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFD-ASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQ  169 (478)
Q Consensus        95 --ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~-~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~  169 (478)
                        +|||++|  |||+.|+|+.|+..+|.+++..++...+..+..+ +++ +.+|..|.|||||||+++|++|+..++++ 
T Consensus      1783 D~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl-~~LA~~T~GfSGADLanLvNEAaliAirq- 1860 (2281)
T CHL00206       1783 QKVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHT-NGFGSITMGSNARDLVALTNEALSISITQ- 1860 (2281)
T ss_pred             ccCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhhcCCCCCcccccH-HHHHHhCCCCCHHHHHHHHHHHHHHHHHc-
Confidence              9999999  9999999999999999999987653322244433 456 99999999999999999999999999876 


Q ss_pred             cCCCCCCCHHHHHHHHHHhhhhc
Q psy450          170 GINKRDLQKEDFQQIYDDLQSRY  192 (478)
Q Consensus       170 ~~~~~~it~~d~~~a~~~~~~~~  192 (478)
                        +...|+.+++..|+.+.....
T Consensus      1861 --~ks~Id~~~I~~Al~Rq~~g~ 1881 (2281)
T CHL00206       1861 --KKSIIDTNTIRSALHRQTWDL 1881 (2281)
T ss_pred             --CCCccCHHHHHHHHHHHHhhh
Confidence              567899999999999887543

>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=99.83  E-value=2.6e-19  Score=161.54  Aligned_cols=187  Identities=21%  Similarity=0.345  Sum_probs=120.8

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHH
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEEN  281 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~  281 (478)
                      .+.++++++|+++++..+.-++..... .+....+++||||||+||||+|+.+|++++.++...+++.+.      ....
T Consensus        19 RP~~L~efiGQ~~l~~~l~i~i~aa~~-r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~------k~~d   91 (233)
T PF05496_consen   19 RPKSLDEFIGQEHLKGNLKILIRAAKK-RGEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIE------KAGD   91 (233)
T ss_dssp             S-SSCCCS-S-HHHHHHHHHHHHHHHC-TTS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--------SCHH
T ss_pred             CCCCHHHccCcHHHHhhhHHHHHHHHh-cCCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhh------hHHH
Confidence            456899999999999998876665532 233366899999999999999999999999999988875432      1223


Q ss_pred             HHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC----------------CCCeEEEEEc
Q psy450          282 IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT----------------SQDVFILGAT  345 (478)
Q Consensus       282 ~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~----------------~~~v~vI~tt  345 (478)
                      +..++....  ...||||||||++.             ......|+..|+...-                -+++.+|++|
T Consensus        92 l~~il~~l~--~~~ILFIDEIHRln-------------k~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligAT  156 (233)
T PF05496_consen   92 LAAILTNLK--EGDILFIDEIHRLN-------------KAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGAT  156 (233)
T ss_dssp             HHHHHHT----TT-EEEECTCCC---------------HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEE
T ss_pred             HHHHHHhcC--CCcEEEEechhhcc-------------HHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeee
Confidence            334444443  34699999999997             3445556666654321                1358899999


Q ss_pred             CCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHHHHHH
Q psy450          346 NRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADIYSIC  415 (478)
Q Consensus       346 n~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di~~l~  415 (478)
                      ++...+.++++.  ||.....+.. .+.++..+|++...+.+++.-+. ...++|+++  .-+++---.++
T Consensus       157 Tr~g~ls~pLrd--RFgi~~~l~~-Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rs--rGtPRiAnrll  222 (233)
T PF05496_consen  157 TRAGLLSSPLRD--RFGIVLRLEF-YSEEELAKIVKRSARILNIEIDEDAAEEIARRS--RGTPRIANRLL  222 (233)
T ss_dssp             SSGCCTSHCCCT--TSSEEEE-----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCT--TTSHHHHHHHH
T ss_pred             ccccccchhHHh--hcceecchhc-CCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhc--CCChHHHHHHH
Confidence            999999999999  9999888887 58999999998777666655332 266777775  34564333333

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.83  E-value=9.4e-20  Score=183.60  Aligned_cols=158  Identities=15%  Similarity=0.239  Sum_probs=133.5

Q ss_pred             HHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhc
Q psy450           18 HLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQC   84 (478)
Q Consensus        18 ~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~   84 (478)
                      .++++|.++... .++.+|. .|+..+||||||||+|++++.|             .+.++++++|++            
T Consensus       200 ~l~~~~~g~~~~-~i~~~f~-~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~------------  265 (389)
T PRK03992        200 ELVQKFIGEGAR-LVRELFE-LAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGF------------  265 (389)
T ss_pred             HHhHhhccchHH-HHHHHHH-HHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhcccc------------
Confidence            345666666544 8999999 9999999999999999998654             356677777753            


Q ss_pred             cCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHH
Q psy450           85 KQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLT  155 (478)
Q Consensus        85 ~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~  155 (478)
                      ...++|.||+       +|+|++|  |||+.|+|+.|+.++|.+||+.++.++  ++..+.++ ..++..|+||+|+|++
T Consensus       266 ~~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~--~~~~~~~~-~~la~~t~g~sgadl~  342 (389)
T PRK03992        266 DPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKM--NLADDVDL-EELAELTEGASGADLK  342 (389)
T ss_pred             CCCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccC--CCCCcCCH-HHHHHHcCCCCHHHHH
Confidence            4455688888       9999999  999999999999999999999999877  56667787 9999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhcccC
Q psy450          156 CLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQ  195 (478)
Q Consensus       156 ~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~~~~  195 (478)
                      .+|++|+..++++   ....|+.+||..|+..++++..+.
T Consensus       343 ~l~~eA~~~a~~~---~~~~i~~~d~~~A~~~~~~~~~~~  379 (389)
T PRK03992        343 AICTEAGMFAIRD---DRTEVTMEDFLKAIEKVMGKEEKD  379 (389)
T ss_pred             HHHHHHHHHHHHc---CCCCcCHHHHHHHHHHHhcccccc
Confidence            9999999999865   456799999999999998766544

>TIGR00763 lon ATP-dependent protease La

Probab=99.82  E-value=9.2e-19  Score=191.02  Aligned_cols=228  Identities=21%  Similarity=0.325  Sum_probs=162.2

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh---------hhhhcc
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL---------NKYIGQ  277 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~---------~~~~g~  277 (478)
                      +++.|++++++.+.+.+..........+.+++|+||||||||++|+++|+.++.+++.+++....         ..|.|.
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~~~~~~g~  399 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHRRTYVGA  399 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCCCCceeCC
Confidence            35899999999999987766444333455799999999999999999999999999998764332         245666


Q ss_pred             hHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC-----CC--------CCCCeEEEEE
Q psy450          278 SEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG-----VH--------TSQDVFILGA  344 (478)
Q Consensus       278 ~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~-----~~--------~~~~v~vI~t  344 (478)
                      ....+.+.|..+....| ||+|||||.+.+...+  +       ..+.|+..++.     +.        +.+++++|+|
T Consensus       400 ~~g~i~~~l~~~~~~~~-villDEidk~~~~~~~--~-------~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~T  469 (775)
T TIGR00763       400 MPGRIIQGLKKAKTKNP-LFLLDEIDKIGSSFRG--D-------PASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIAT  469 (775)
T ss_pred             CCchHHHHHHHhCcCCC-EEEEechhhcCCccCC--C-------HHHHHHHhcCHHhcCccccccCCceeccCCEEEEEe
Confidence            67777788888766666 8999999999853211  1       12344544442     11        1247899999


Q ss_pred             cCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH-----hcCCCC------CCCCHHHHHHhcCCCCCHHHHHH
Q psy450          345 TNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV-----RKFKLS------DDVSLDSLVHHFPSQMSGADIYS  413 (478)
Q Consensus       345 tn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~-----~~~~~~------~~~~~~~la~~~~~~~sg~di~~  413 (478)
                      ||.++.+++++++  ||. .+.++. ++.+++..|++.++     +..++.      .+..+..+++.++..+..++|+.
T Consensus       470 tN~~~~i~~~L~~--R~~-vi~~~~-~~~~e~~~I~~~~l~~~~~~~~~l~~~~~~~~~~~l~~i~~~~~~e~g~R~l~r  545 (775)
T TIGR00763       470 ANSIDTIPRPLLD--RME-VIELSG-YTEEEKLEIAKKYLIPKALEDHGLKPDELKITDEALLLLIKYYTREAGVRNLER  545 (775)
T ss_pred             cCCchhCCHHHhC--Cee-EEecCC-CCHHHHHHHHHHHHHHHHHHHcCCCcceEEECHHHHHHHHHhcChhcCChHHHH
Confidence            9999999999999  995 778876 68899999998765     222221      11236667776666677788888


Q ss_pred             HHHHHHHHHHHHHHhcCCC--CCCCCccccHHHHHhc
Q psy450          414 ICSNAWTRAIRRIITSAPQ--VKSAPVIVTMDDFLGA  448 (478)
Q Consensus       414 l~~~a~~~a~~r~~~~~~~--~~~~~~~it~~d~~~A  448 (478)
                      .+...+..+..+....+..  .......++.+++..-
T Consensus       546 ~i~~~~~~~~~~~~~~~~~~~~~~~~v~i~~~~~~~~  582 (775)
T TIGR00763       546 QIEKICRKAAVKLVEQGEKKKSEAESVVITPDNLKKY  582 (775)
T ss_pred             HHHHHHHHHHHHHHhccCcccCCcccccCCHHHHHHh
Confidence            8888887777666532211  1122357888888777

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.

>KOG0729|consensus

Probab=99.82  E-value=2.2e-20  Score=169.12  Aligned_cols=163  Identities=10%  Similarity=0.186  Sum_probs=138.3

Q ss_pred             HHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccchh-------------hHhhhccccccccccccchhhh
Q psy450           17 SHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKY-------------VYFKLCSFDSVNVKSNETKDQQ   83 (478)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r~-------------~~~~l~~~d~~~~~~~~~~~~~   83 (478)
                      +.|+.+|.++... .+|.+|. .|+..+.|||||||||++++.|+             .-.+++++|            |
T Consensus       245 selvqkyvgegar-mvrelf~-martkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qld------------g  310 (435)
T KOG0729|consen  245 SELVQKYVGEGAR-MVRELFE-MARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLD------------G  310 (435)
T ss_pred             HHHHHHHhhhhHH-HHHHHHH-HhcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhcc------------C
Confidence            4567788777655 9999999 99999999999999999999982             234456666            5


Q ss_pred             ccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHH
Q psy450           84 CKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDL  154 (478)
Q Consensus        84 ~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di  154 (478)
                      ++.++++-|+-       +|||++|  |.|+.++|.+||.+.|..|++.+.+.+  ....++.| +-+|.++.+-+|++|
T Consensus       311 fdprgnikvlmatnrpdtldpallrpgrldrkvef~lpdlegrt~i~kihaksm--sverdir~-ellarlcpnstgaei  387 (435)
T KOG0729|consen  311 FDPRGNIKVLMATNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSM--SVERDIRF-ELLARLCPNSTGAEI  387 (435)
T ss_pred             CCCCCCeEEEeecCCCCCcCHhhcCCcccccceeccCCcccccceeEEEecccc--ccccchhH-HHHHhhCCCCcchHH
Confidence            57788877766       9999999  999999999999999999999999998  66778888 999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhcccCCCCC
Q psy450          155 TCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAP  199 (478)
Q Consensus       155 ~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~~~~~~~~  199 (478)
                      +.+|.+|.+.+++.   .....|+.||..|...+.....+....+
T Consensus       388 rsvcteagmfaira---rrk~atekdfl~av~kvvkgy~kfsatp  429 (435)
T KOG0729|consen  388 RSVCTEAGMFAIRA---RRKVATEKDFLDAVNKVVKGYAKFSATP  429 (435)
T ss_pred             HHHHHHhhHHHHHH---HhhhhhHHHHHHHHHHHHHHHHhccCCc
Confidence            99999999999865   3456789999999998877665544433

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

Probab=99.81  E-value=1.7e-19  Score=181.93  Aligned_cols=153  Identities=12%  Similarity=0.207  Sum_probs=129.6

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhcc
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCK   85 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~   85 (478)
                      ++++|.++.. ..++.+|. .|+..+||||||||+|+++.+|             .+..+|.+||++            .
T Consensus       253 L~~k~~Ge~~-~~vr~lF~-~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~------------~  318 (438)
T PTZ00361        253 LIQKYLGDGP-KLVRELFR-VAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGF------------D  318 (438)
T ss_pred             hhhhhcchHH-HHHHHHHH-HHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhh------------c
Confidence            4556665554 48999999 9999999999999999998755             345677777753            4


Q ss_pred             CCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHH
Q psy450           86 QQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTC  156 (478)
Q Consensus        86 ~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~  156 (478)
                      ...+|.||+       +|||++|  |||++|+|+.||.++|.+||+.+++++  .+..++++ +.++..|+||||+||+.
T Consensus       319 ~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~--~l~~dvdl-~~la~~t~g~sgAdI~~  395 (438)
T PTZ00361        319 SRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKM--TLAEDVDL-EEFIMAKDELSGADIKA  395 (438)
T ss_pred             ccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcC--CCCcCcCH-HHHHHhcCCCCHHHHHH
Confidence            445677777       9999998  999999999999999999999999888  66778888 99999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhh
Q psy450          157 LVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       157 l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      +|++|+..|.++   +...|+.+||..|+..+...
T Consensus       396 i~~eA~~~Alr~---~r~~Vt~~D~~~A~~~v~~~  427 (438)
T PTZ00361        396 ICTEAGLLALRE---RRMKVTQADFRKAKEKVLYR  427 (438)
T ss_pred             HHHHHHHHHHHh---cCCccCHHHHHHHHHHHHhh
Confidence            999999999865   46789999999999987543

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.80  E-value=6e-19  Score=183.82  Aligned_cols=151  Identities=16%  Similarity=0.192  Sum_probs=128.3

Q ss_pred             HHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhccC
Q psy450           20 LTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCKQ   86 (478)
Q Consensus        20 ~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~~   86 (478)
                      .+.|.+.. ...++++|+ .|+..+||||||||+|+++.+|             .++++|.+||++            ..
T Consensus       125 ~~~~~g~~-~~~l~~~f~-~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~------------~~  190 (495)
T TIGR01241       125 VEMFVGVG-ASRVRDLFE-QAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGF------------GT  190 (495)
T ss_pred             HHHHhccc-HHHHHHHHH-HHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccc------------cC
Confidence            34444444 448999999 9999999999999999998654             577888889864            44


Q ss_pred             CCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHH
Q psy450           87 QHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCL  157 (478)
Q Consensus        87 ~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l  157 (478)
                      .++|+|||       +|||++|  |||+.|+|+.||.++|.+||+.+++..  ++..+.++ ..++..|.||||+||+.+
T Consensus       191 ~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~--~~~~~~~l-~~la~~t~G~sgadl~~l  267 (495)
T TIGR01241       191 NTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNK--KLAPDVDL-KAVARRTPGFSGADLANL  267 (495)
T ss_pred             CCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcC--CCCcchhH-HHHHHhCCCCCHHHHHHH
Confidence            56688888       9999999  999999999999999999999999876  45567777 999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhh
Q psy450          158 VRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQS  190 (478)
Q Consensus       158 ~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~  190 (478)
                      |++|+..+.++   +...++.+||..|+.....
T Consensus       268 ~~eA~~~a~~~---~~~~i~~~~l~~a~~~~~~  297 (495)
T TIGR01241       268 LNEAALLAARK---NKTEITMNDIEEAIDRVIA  297 (495)
T ss_pred             HHHHHHHHHHc---CCCCCCHHHHHHHHHHHhc
Confidence            99998887654   4578999999999998764

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.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.80  E-value=5e-19  Score=188.74  Aligned_cols=150  Identities=16%  Similarity=0.183  Sum_probs=130.2

Q ss_pred             hhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhccCCC
Q psy450           22 NYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCKQQH   88 (478)
Q Consensus        22 ~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~~~~   88 (478)
                      .|.+. .+..++.+|. .|++.+||||||||+|+++..|             .++++|.+||++            ..+.
T Consensus       224 ~~~g~-~~~~~~~~f~-~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~------------~~~~  289 (644)
T PRK10733        224 MFVGV-GASRVRDMFE-QAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGF------------EGNE  289 (644)
T ss_pred             hhhcc-cHHHHHHHHH-HHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcc------------cCCC
Confidence            34444 4558999999 9999999999999999998654             678899999964            4566


Q ss_pred             cEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHH
Q psy450           89 KKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVR  159 (478)
Q Consensus        89 ~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~  159 (478)
                      +|+|||       +|||++|  |||+.|+|++||.++|.+||+.++++.  ++..+.++ ..+++.|.||||+||.++|+
T Consensus       290 ~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~--~l~~~~d~-~~la~~t~G~sgadl~~l~~  366 (644)
T PRK10733        290 GIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRV--PLAPDIDA-AIIARGTPGFSGADLANLVN  366 (644)
T ss_pred             CeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcC--CCCCcCCH-HHHHhhCCCCCHHHHHHHHH
Confidence            788888       9999999  999999999999999999999999887  66777887 99999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhh
Q psy450          160 LSVKNKMLKQGINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       160 ~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      +|+..+.++   +...++..||..|+..+...
T Consensus       367 eAa~~a~r~---~~~~i~~~d~~~a~~~v~~g  395 (644)
T PRK10733        367 EAALFAARG---NKRVVSMVEFEKAKDKIMMG  395 (644)
T ss_pred             HHHHHHHHc---CCCcccHHHHHHHHHHHhcc
Confidence            999998864   56789999999999987543

>KOG0740|consensus

Probab=99.80  E-value=2.4e-19  Score=176.56  Aligned_cols=163  Identities=18%  Similarity=0.256  Sum_probs=135.5

Q ss_pred             HHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCC
Q psy450           18 HLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQ   87 (478)
Q Consensus        18 ~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~   87 (478)
                      .|.++|-|+. +..+|.+|+ .|++.+|+|+||||+|+++..|          ...++|-++|+...          ...
T Consensus       221 sLtsK~~Ge~-eK~vralf~-vAr~~qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s----------~~~  288 (428)
T KOG0740|consen  221 SLTSKYVGES-EKLVRALFK-VARSLQPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNS----------APD  288 (428)
T ss_pred             HhhhhccChH-HHHHHHHHH-HHHhcCCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccC----------CCC
Confidence            4455555555 669999999 9999999999999999999887          57778888887543          345


Q ss_pred             CcEEEEe-------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHH
Q psy450           88 HKKKLVL-------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRL  160 (478)
Q Consensus        88 ~~v~via-------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~  160 (478)
                      ++|+|||       +|.|++|||.+.++||+||.++|..+|+.++.+.+..+ .+.++ +.+++.|+||||+||..+|++
T Consensus       289 drvlvigaTN~P~e~Dea~~Rrf~kr~yiplPd~etr~~~~~~ll~~~~~~l-~~~d~-~~l~~~Tegysgsdi~~l~ke  366 (428)
T KOG0740|consen  289 DRVLVIGATNRPWELDEAARRRFVKRLYIPLPDYETRSLLWKQLLKEQPNGL-SDLDI-SLLAKVTEGYSGSDITALCKE  366 (428)
T ss_pred             CeEEEEecCCCchHHHHHHHHHhhceeeecCCCHHHHHHHHHHHHHhCCCCc-cHHHH-HHHHHHhcCcccccHHHHHHH
Confidence            6899999       99999999999999999999999999999997763222 33555 999999999999999999999


Q ss_pred             HHHHHHHhhc----------CCCCCCCHHHHHHHHHHhhhhccc
Q psy450          161 SVKNKMLKQG----------INKRDLQKEDFQQIYDDLQSRYSD  194 (478)
Q Consensus       161 a~~~a~~~~~----------~~~~~it~~d~~~a~~~~~~~~~~  194 (478)
                      |+....+...          ...++++..||..+++.++++...
T Consensus       367 a~~~p~r~~~~~~~~~~~~~~~~r~i~~~df~~a~~~i~~~~s~  410 (428)
T KOG0740|consen  367 AAMGPLRELGGTTDLEFIDADKIRPITYPDFKNAFKNIKPSVSL  410 (428)
T ss_pred             hhcCchhhcccchhhhhcchhccCCCCcchHHHHHHhhccccCc
Confidence            9997765421          246789999999999999876543

>CHL00176 ftsH cell division protein; Validated

Probab=99.77  E-value=3.8e-18  Score=180.00  Aligned_cols=144  Identities=17%  Similarity=0.202  Sum_probs=125.1

Q ss_pred             cchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhccCCCcEEEEe
Q psy450           28 RYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL   94 (478)
Q Consensus        28 ~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via   94 (478)
                      ....++.+|. .|+..+||||||||+|+++..|             .++++|.+||+.            ..+.+|+|||
T Consensus       260 ~~~~vr~lF~-~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~------------~~~~~ViVIa  326 (638)
T CHL00176        260 GAARVRDLFK-KAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGF------------KGNKGVIVIA  326 (638)
T ss_pred             hHHHHHHHHH-HHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccc------------cCCCCeeEEE
Confidence            4458999999 9999999999999999998543             578889999854            4456788888


Q ss_pred             -------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHH
Q psy450           95 -------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNK  165 (478)
Q Consensus        95 -------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a  165 (478)
                             +|||++|  |||+.|+|++|+.++|.+||+.+++..  .+..+.++ ..+|..|.||+|+||+.++++|+..+
T Consensus       327 aTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~--~~~~d~~l-~~lA~~t~G~sgaDL~~lvneAal~a  403 (638)
T CHL00176        327 ATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNK--KLSPDVSL-ELIARRTPGFSGADLANLLNEAAILT  403 (638)
T ss_pred             ecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhc--ccchhHHH-HHHHhcCCCCCHHHHHHHHHHHHHHH
Confidence                   8999999  999999999999999999999999875  55667777 99999999999999999999999887


Q ss_pred             HHhhcCCCCCCCHHHHHHHHHHhhh
Q psy450          166 MLKQGINKRDLQKEDFQQIYDDLQS  190 (478)
Q Consensus       166 ~~~~~~~~~~it~~d~~~a~~~~~~  190 (478)
                      .++   +...++.+||..|+.++..
T Consensus       404 ~r~---~~~~It~~dl~~Ai~rv~~  425 (638)
T CHL00176        404 ARR---KKATITMKEIDTAIDRVIA  425 (638)
T ss_pred             HHh---CCCCcCHHHHHHHHHHHHh
Confidence            654   5677999999999998743

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.77  E-value=2.8e-17  Score=162.66  Aligned_cols=213  Identities=19%  Similarity=0.240  Sum_probs=147.0

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHH
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEEN  281 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~  281 (478)
                      .+.+|++++|+++.++.+...+...... +.++.+++|+||||||||++|+++|++++..+..++++.+.      ....
T Consensus        20 rP~~~~~~vG~~~~~~~l~~~l~~~~~~-~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~------~~~~   92 (328)
T PRK00080         20 RPKSLDEFIGQEKVKENLKIFIEAAKKR-GEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALE------KPGD   92 (328)
T ss_pred             CcCCHHHhcCcHHHHHHHHHHHHHHHhc-CCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEeccccc------ChHH
Confidence            3458999999999999999887655332 33467899999999999999999999999988777654331      1223


Q ss_pred             HHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhh------cCCC-------CCCCeEEEEEcCCC
Q psy450          282 IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEM------DGVH-------TSQDVFILGATNRV  348 (478)
Q Consensus       282 ~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l------~~~~-------~~~~v~vI~ttn~~  348 (478)
                      +..++...  ..+++|||||+|.+....          .+.+...+...      +.-.       .-.++.+|++||++
T Consensus        93 l~~~l~~l--~~~~vl~IDEi~~l~~~~----------~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~  160 (328)
T PRK00080         93 LAAILTNL--EEGDVLFIDEIHRLSPVV----------EEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRA  160 (328)
T ss_pred             HHHHHHhc--ccCCEEEEecHhhcchHH----------HHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCc
Confidence            44444443  345799999999986321          12222222211      0000       11347889999999


Q ss_pred             CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHH
Q psy450          349 DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII  427 (478)
Q Consensus       349 ~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~  427 (478)
                      ..+++++++  ||...+.++. ++.+++.+|++......++.-+. .+..++..+ .| +++.+..+++.+...+..+. 
T Consensus       161 ~~l~~~L~s--Rf~~~~~l~~-~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~-~G-~pR~a~~~l~~~~~~a~~~~-  234 (328)
T PRK00080        161 GLLTSPLRD--RFGIVQRLEF-YTVEELEKIVKRSARILGVEIDEEGALEIARRS-RG-TPRIANRLLRRVRDFAQVKG-  234 (328)
T ss_pred             ccCCHHHHH--hcCeeeecCC-CCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHc-CC-CchHHHHHHHHHHHHHHHcC-
Confidence            999999998  9988889986 78999999999887766544322 277788877 44 44667777776665544331 


Q ss_pred             hcCCCCCCCCccccHHHHHhc
Q psy450          428 TSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       428 ~~~~~~~~~~~~it~~d~~~A  448 (478)
                               ...|+.+++..+
T Consensus       235 ---------~~~I~~~~v~~~  246 (328)
T PRK00080        235 ---------DGVITKEIADKA  246 (328)
T ss_pred             ---------CCCCCHHHHHHH
Confidence                     235777777777

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.76  E-value=6.5e-17  Score=158.78  Aligned_cols=207  Identities=21%  Similarity=0.258  Sum_probs=140.7

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHH
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRN  284 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~  284 (478)
                      +|++++|++++++.|...+...... +..+.+++|+||||||||++|+++|++++.++..+.++...      ....+..
T Consensus         2 ~~~~~iG~~~~~~~l~~~l~~~~~~-~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~------~~~~l~~   74 (305)
T TIGR00635         2 LLAEFIGQEKVKEQLQLFIEAAKMR-QEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALE------KPGDLAA   74 (305)
T ss_pred             CHHHHcCHHHHHHHHHHHHHHHHhc-CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhc------CchhHHH
Confidence            6899999999999998887654332 22366799999999999999999999999887766544321      1122333


Q ss_pred             HHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC----------------CCCCeEEEEEcCCC
Q psy450          285 VFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH----------------TSQDVFILGATNRV  348 (478)
Q Consensus       285 ~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~----------------~~~~v~vI~ttn~~  348 (478)
                      .+...  ..+.+|||||+|.+.+.             ....|...++...                ...++.+|++||++
T Consensus        75 ~l~~~--~~~~vl~iDEi~~l~~~-------------~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~  139 (305)
T TIGR00635        75 ILTNL--EEGDVLFIDEIHRLSPA-------------VEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRA  139 (305)
T ss_pred             HHHhc--ccCCEEEEehHhhhCHH-------------HHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCc
Confidence            33332  34579999999998742             1122333322111                12347899999999


Q ss_pred             CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHH
Q psy450          349 DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII  427 (478)
Q Consensus       349 ~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~  427 (478)
                      ..+++++++  ||...+.++. ++.++..++++.......+.-+ ..++.+++.+ .|+. +.+..++..++..|.... 
T Consensus       140 ~~l~~~l~s--R~~~~~~l~~-l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~-~G~p-R~~~~ll~~~~~~a~~~~-  213 (305)
T TIGR00635       140 GMLTSPLRD--RFGIILRLEF-YTVEELAEIVSRSAGLLNVEIEPEAALEIARRS-RGTP-RIANRLLRRVRDFAQVRG-  213 (305)
T ss_pred             cccCHHHHh--hcceEEEeCC-CCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHh-CCCc-chHHHHHHHHHHHHHHcC-
Confidence            999999999  9988888986 6888999999887765544322 2366788776 5544 566677776654443221 


Q ss_pred             hcCCCCCCCCccccHHHHHhc
Q psy450          428 TSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       428 ~~~~~~~~~~~~it~~d~~~A  448 (478)
                               ...+|.+++.++
T Consensus       214 ---------~~~it~~~v~~~  225 (305)
T TIGR00635       214 ---------QKIINRDIALKA  225 (305)
T ss_pred             ---------CCCcCHHHHHHH
Confidence                     234677777776

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.

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

Probab=99.75  E-value=1.2e-16  Score=146.90  Aligned_cols=198  Identities=19%  Similarity=0.298  Sum_probs=142.6

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHH
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEE  280 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~  280 (478)
                      ..+..|++.+|++++|++|.-.+..... .+....|+||+||||.||||||+.+|+++|.++...+++.+.      ...
T Consensus        20 lRP~~l~efiGQ~~vk~~L~ifI~AAk~-r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~le------K~g   92 (332)
T COG2255          20 LRPKTLDEFIGQEKVKEQLQIFIKAAKK-RGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALE------KPG   92 (332)
T ss_pred             cCcccHHHhcChHHHHHHHHHHHHHHHh-cCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEeccccccc------Chh
Confidence            3456799999999999999887776643 344478999999999999999999999999998888776552      233


Q ss_pred             HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhh--c---C--CC------CCCCeEEEEEcCC
Q psy450          281 NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEM--D---G--VH------TSQDVFILGATNR  347 (478)
Q Consensus       281 ~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l--~---~--~~------~~~~v~vI~ttn~  347 (478)
                      -+..++.....+  +|+||||||++.+..          .++++--+.-+  |   |  ..      +-+++.+|++|.+
T Consensus        93 DlaaiLt~Le~~--DVLFIDEIHrl~~~v----------EE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr  160 (332)
T COG2255          93 DLAAILTNLEEG--DVLFIDEIHRLSPAV----------EEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTR  160 (332)
T ss_pred             hHHHHHhcCCcC--CeEEEehhhhcChhH----------HHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccc
Confidence            444555555444  699999999998532          34444333211  1   1  00      1246889999999


Q ss_pred             CCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy450          348 VDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADIYSICSNAWTRA  422 (478)
Q Consensus       348 ~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di~~l~~~a~~~a  422 (478)
                      ...+...|+.  ||.....+.. .+.++...|++...+.+++.-+. ...++|++. . -|++=--.++++..-.|
T Consensus       161 ~G~lt~PLrd--RFGi~~rlef-Y~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rS-R-GTPRIAnRLLrRVRDfa  231 (332)
T COG2255         161 AGMLTNPLRD--RFGIIQRLEF-YTVEELEEIVKRSAKILGIEIDEEAALEIARRS-R-GTPRIANRLLRRVRDFA  231 (332)
T ss_pred             cccccchhHH--hcCCeeeeec-CCHHHHHHHHHHHHHHhCCCCChHHHHHHHHhc-c-CCcHHHHHHHHHHHHHH
Confidence            9999999999  9999999987 58999999998887777765443 367778775 3 35543334444444333

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.74  E-value=2.3e-17  Score=165.62  Aligned_cols=150  Identities=15%  Similarity=0.221  Sum_probs=124.9

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhcc
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCK   85 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~   85 (478)
                      +.++|+++.. ..++.+|+ .|+..+|+||||||+|+++..|             .+.+++.++|++            .
T Consensus       192 l~~~~~g~~~-~~i~~~f~-~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~------------~  257 (364)
T TIGR01242       192 LVRKYIGEGA-RLVREIFE-LAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGF------------D  257 (364)
T ss_pred             HHHHhhhHHH-HHHHHHHH-HHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCC------------C
Confidence            3455555544 47899999 9999999999999999997653             355666666643            3


Q ss_pred             CCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHH
Q psy450           86 QQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTC  156 (478)
Q Consensus        86 ~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~  156 (478)
                      ..++|.||+       +|++++|  |||+.|+|+.|+.++|.+||+.++.+.  .+..+.++ +.++..|+||+|+|++.
T Consensus       258 ~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~--~l~~~~~~-~~la~~t~g~sg~dl~~  334 (364)
T TIGR01242       258 PRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKM--KLAEDVDL-EAIAKMTEGASGADLKA  334 (364)
T ss_pred             CCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcC--CCCccCCH-HHHHHHcCCCCHHHHHH
Confidence            445677777       8999998  999999999999999999999999877  55566777 99999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          157 LVRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       157 l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      +|++|...++++   +...|+.+||..|+..+
T Consensus       335 l~~~A~~~a~~~---~~~~i~~~d~~~a~~~~  363 (364)
T TIGR01242       335 ICTEAGMFAIRE---ERDYVTMDDFIKAVEKV  363 (364)
T ss_pred             HHHHHHHHHHHh---CCCccCHHHHHHHHHHh
Confidence            999999999865   56789999999998864

Many proteins may score above the trusted cutoff because an internal

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

Probab=99.72  E-value=6.2e-16  Score=158.32  Aligned_cols=224  Identities=22%  Similarity=0.326  Sum_probs=155.2

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh---------hhhhcc
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL---------NKYIGQ  277 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~---------~~~~g~  277 (478)
                      .+-.|++++|+++.+.+.-.....+.+..-++|+||||+|||++++.||+.++..|+.++...+.         .-|+|.
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHRRTYIGa  402 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIGA  402 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhcccccccccc
Confidence            46789999999999998877766666667788999999999999999999999999999864332         338899


Q ss_pred             hHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC-------------CCCCCeEEEEE
Q psy450          278 SEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV-------------HTSQDVFILGA  344 (478)
Q Consensus       278 ~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~-------------~~~~~v~vI~t  344 (478)
                      ....+-+-+.++...+| +++|||||++...-  .++.+       +.||..+|.-             -+-++|++|+|
T Consensus       403 mPGrIiQ~mkka~~~NP-v~LLDEIDKm~ss~--rGDPa-------SALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaT  472 (782)
T COG0466         403 MPGKIIQGMKKAGVKNP-VFLLDEIDKMGSSF--RGDPA-------SALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIAT  472 (782)
T ss_pred             CChHHHHHHHHhCCcCC-eEEeechhhccCCC--CCChH-------HHHHhhcCHhhcCchhhccccCccchhheEEEee
Confidence            99999999999999998 89999999998532  11111       2344433321             11346999999


Q ss_pred             cCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH-----hcCCCCC------CCCHHHHHHhcCCCCCHHHHHH
Q psy450          345 TNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV-----RKFKLSD------DVSLDSLVHHFPSQMSGADIYS  413 (478)
Q Consensus       345 tn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~-----~~~~~~~------~~~~~~la~~~~~~~sg~di~~  413 (478)
                      +|..+.+|.+|+.  |+ ..|.+.- .+.+++.+|.+.++     +..++..      +.-+..+.+.+|..---+.+..
T Consensus       473 ANsl~tIP~PLlD--RM-EiI~lsg-Yt~~EKl~IAk~~LiPk~~~~~gL~~~el~i~d~ai~~iI~~YTREAGVR~LeR  548 (782)
T COG0466         473 ANSLDTIPAPLLD--RM-EVIRLSG-YTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEAIKDIIRYYTREAGVRNLER  548 (782)
T ss_pred             cCccccCChHHhc--ce-eeeeecC-CChHHHHHHHHHhcchHHHHHcCCCccceeecHHHHHHHHHHHhHhhhhhHHHH
Confidence            9999999999999  98 5777876 58899999998776     2223321      1225566665532211233443


Q ss_pred             HHHHHHHHHHHHHHhcCCCCCCCC-ccccHHHHHhc
Q psy450          414 ICSNAWTRAIRRIITSAPQVKSAP-VIVTMDDFLGA  448 (478)
Q Consensus       414 l~~~a~~~a~~r~~~~~~~~~~~~-~~it~~d~~~A  448 (478)
                      -+...++.++.......    ... ..++..++.+=
T Consensus       549 ~i~ki~RK~~~~i~~~~----~k~~~~i~~~~l~~y  580 (782)
T COG0466         549 EIAKICRKAAKKILLKK----EKSIVKIDEKNLKKY  580 (782)
T ss_pred             HHHHHHHHHHHHHHhcC----cccceeeCHHHHHHH
Confidence            34444444444443321    112 35666666554

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

Probab=99.72  E-value=9.8e-17  Score=174.30  Aligned_cols=227  Identities=20%  Similarity=0.262  Sum_probs=155.7

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhh-
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELL-  271 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~-  271 (478)
                      +-.+++++|.++...++.+.+...      ...+++|+||||||||++++++|+.+          +.+++.+++..+. 
T Consensus       178 ~~~l~~~igr~~ei~~~~~~L~~~------~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a  251 (731)
T TIGR02639       178 NGKIDPLIGREDELERTIQVLCRR------KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLA  251 (731)
T ss_pred             cCCCCcccCcHHHHHHHHHHHhcC------CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhh
Confidence            346789999999988777655322      25679999999999999999999987          7789999988887 


Q ss_pred             -hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC-
Q psy450          272 -NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD-  349 (478)
Q Consensus       272 -~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~-  349 (478)
                       .+|.|+.+..++.+|+.+....++||||||+|.+.+.+...+.+    ....+.|...+.    ++.+.+|++||..+ 
T Consensus       252 ~~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~----~~~~~~L~~~l~----~g~i~~IgaTt~~e~  323 (731)
T TIGR02639       252 GTKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGS----MDASNLLKPALS----SGKLRCIGSTTYEEY  323 (731)
T ss_pred             hccccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCcc----HHHHHHHHHHHh----CCCeEEEEecCHHHH
Confidence             46889999999999999987788999999999998654321111    112233333333    46789999999643 


Q ss_pred             ----CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCC----CC-CCCCHHHHHHhcCCCCC-----HHHHHHHH
Q psy450          350 ----LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFK----LS-DDVSLDSLVHHFPSQMS-----GADIYSIC  415 (478)
Q Consensus       350 ----~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~----~~-~~~~~~~la~~~~~~~s-----g~di~~l~  415 (478)
                          ..|+++.|  ||. .+.++. |+.+++..|++.......    +. .+..+..++... ..|-     +..--.++
T Consensus       324 ~~~~~~d~al~r--Rf~-~i~v~~-p~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls-~ryi~~r~~P~kai~ll  398 (731)
T TIGR02639       324 KNHFEKDRALSR--RFQ-KIDVGE-PSIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELS-ARYINDRFLPDKAIDVI  398 (731)
T ss_pred             HHHhhhhHHHHH--hCc-eEEeCC-CCHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhh-hcccccccCCHHHHHHH
Confidence                47999999  997 689986 799999999987665432    11 112244444433 3333     33334555


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchhccCC
Q psy450          416 SNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATA  454 (478)
Q Consensus       416 ~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~~~~  454 (478)
                      .+|+....-+.      .......||.+|+..+++.-++
T Consensus       399 d~a~a~~~~~~------~~~~~~~v~~~~i~~~i~~~tg  431 (731)
T TIGR02639       399 DEAGASFRLRP------KAKKKANVSVKDIENVVAKMAH  431 (731)
T ss_pred             HHhhhhhhcCc------ccccccccCHHHHHHHHHHHhC
Confidence            65553221110      0012346999999999444433

>KOG0651|consensus

Probab=99.71  E-value=3.8e-18  Score=158.10  Aligned_cols=153  Identities=14%  Similarity=0.234  Sum_probs=130.4

Q ss_pred             HHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhh
Q psy450           17 SHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQ   83 (478)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~   83 (478)
                      +.+.++|.|++.. -+|+.|. .|+...|||||+||||++++.|             .+-.++++||+            
T Consensus       200 s~lv~kyiGEsaR-lIRemf~-yA~~~~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdg------------  265 (388)
T KOG0651|consen  200 SALVDKYIGESAR-LIRDMFR-YAREVIPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDG------------  265 (388)
T ss_pred             hhhhhhhcccHHH-HHHHHHH-HHhhhCceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhcc------------
Confidence            5678899998877 9999999 9999999999999999999987             24455667774            


Q ss_pred             ccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHH
Q psy450           84 CKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDL  154 (478)
Q Consensus        84 ~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di  154 (478)
                      .+..++|-+|.       +||||+|  |.|+.+++|+|+...|..|++.+...+  ....+.+. +.+.+.++||+|+|+
T Consensus       266 fd~l~rVk~ImatNrpdtLdpaLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i--~~~Geid~-eaivK~~d~f~gad~  342 (388)
T KOG0651|consen  266 FDTLHRVKTIMATNRPDTLDPALLRPGRLDRKVEIPLPNEQARLGILKIHVQPI--DFHGEIDD-EAILKLVDGFNGADL  342 (388)
T ss_pred             chhcccccEEEecCCccccchhhcCCccccceeccCCcchhhceeeEeeccccc--cccccccH-HHHHHHHhccChHHH
Confidence            46666776666       9999999  999999999999999999999999887  66677888 999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          155 TCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       155 ~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      ++.|++|-+-++.+   ....+-++||-.+..+..
T Consensus       343 rn~~tEag~Fa~~~---~~~~vl~Ed~~k~vrk~~  374 (388)
T KOG0651|consen  343 RNVCTEAGMFAIPE---ERDEVLHEDFMKLVRKQA  374 (388)
T ss_pred             hhhcccccccccch---hhHHHhHHHHHHHHHHHH
Confidence            99999999776643   455677888888877664

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

Probab=99.71  E-value=3.3e-16  Score=169.42  Aligned_cols=223  Identities=19%  Similarity=0.312  Sum_probs=156.4

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh---------hhhhcch
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL---------NKYIGQS  278 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~---------~~~~g~~  278 (478)
                      +..|++++|+++.+.+.............++|+||||+|||++++.+|+.++.+++.++.....         ..|.|..
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~~~~~~g~~  402 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHRRTYIGSM  402 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccchhccCCCC
Confidence            5899999999999887765443333455699999999999999999999999999988765432         2355656


Q ss_pred             HHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC-------------CCCCCeEEEEEc
Q psy450          279 EENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV-------------HTSQDVFILGAT  345 (478)
Q Consensus       279 ~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~-------------~~~~~v~vI~tt  345 (478)
                      ...+.+.+..+...+| |++|||+|++.....      +   .....|+..+|.-             .+-+++++|+|+
T Consensus       403 ~G~~~~~l~~~~~~~~-villDEidk~~~~~~------g---~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~Ta  472 (784)
T PRK10787        403 PGKLIQKMAKVGVKNP-LFLLDEIDKMSSDMR------G---DPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATS  472 (784)
T ss_pred             CcHHHHHHHhcCCCCC-EEEEEChhhcccccC------C---CHHHHHHHHhccccEEEEecccccccccCCceEEEEcC
Confidence            5666666666655555 899999999975421      1   1234555555421             123679999999


Q ss_pred             CCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHh-----cCCCCC------CCCHHHHHHhcCCCCCHHHHHHH
Q psy450          346 NRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVR-----KFKLSD------DVSLDSLVHHFPSQMSGADIYSI  414 (478)
Q Consensus       346 n~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~-----~~~~~~------~~~~~~la~~~~~~~sg~di~~l  414 (478)
                      |.. .++++|++  ||. .+.+.. ++.++..+|.+.++.     ..++..      +.-+..+++.++..+-.+.++..
T Consensus       473 N~~-~i~~aLl~--R~~-ii~~~~-~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~ai~~ii~~yt~e~GaR~LeR~  547 (784)
T PRK10787        473 NSM-NIPAPLLD--RME-VIRLSG-YTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREAGVRSLERE  547 (784)
T ss_pred             CCC-CCCHHHhc--cee-eeecCC-CCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHHHHHHHHHhCCcccCCcHHHHH
Confidence            987 49999999  995 566664 689999999977763     111111      11266666666666667888888


Q ss_pred             HHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          415 CSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       415 ~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      +...+..++.+.....   ......|+.+++.+-
T Consensus       548 I~~i~r~~l~~~~~~~---~~~~v~v~~~~~~~~  578 (784)
T PRK10787        548 ISKLCRKAVKQLLLDK---SLKHIEINGDNLHDY  578 (784)
T ss_pred             HHHHHHHHHHHHHhcC---CCceeeecHHHHHHH
Confidence            8888888777765332   123457888888877

>KOG2004|consensus

Probab=99.70  E-value=9e-16  Score=156.29  Aligned_cols=164  Identities=24%  Similarity=0.389  Sum_probs=127.9

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh---------hhhhcc
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL---------NKYIGQ  277 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~---------~~~~g~  277 (478)
                      +|-.|++++|+++.+++.--.-+....+.-+.|+||||+|||++++.||..++..|+.++...+.         .-|+|.
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            56799999999999987765444344466788999999999999999999999999999864432         238888


Q ss_pred             hHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC-------------CCCCCCeEEEEE
Q psy450          278 SEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG-------------VHTSQDVFILGA  344 (478)
Q Consensus       278 ~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~-------------~~~~~~v~vI~t  344 (478)
                      ....+-+.+......+| +++|||+|++..  +..++.+       ..||..+|.             .-+-.+|++|||
T Consensus       491 MPGkiIq~LK~v~t~NP-liLiDEvDKlG~--g~qGDPa-------sALLElLDPEQNanFlDHYLdVp~DLSkVLFicT  560 (906)
T KOG2004|consen  491 MPGKIIQCLKKVKTENP-LILIDEVDKLGS--GHQGDPA-------SALLELLDPEQNANFLDHYLDVPVDLSKVLFICT  560 (906)
T ss_pred             CChHHHHHHHhhCCCCc-eEEeehhhhhCC--CCCCChH-------HHHHHhcChhhccchhhhccccccchhheEEEEe
Confidence            89999999999998998 899999999982  2233222       233333332             112357999999


Q ss_pred             cCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          345 TNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       345 tn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                      +|..+.++++|+.  |+ ..|.++- ...+++.+|.+.++
T Consensus       561 AN~idtIP~pLlD--RM-EvIelsG-Yv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  561 ANVIDTIPPPLLD--RM-EVIELSG-YVAEEKVKIAERYL  596 (906)
T ss_pred             ccccccCChhhhh--hh-heeeccC-ccHHHHHHHHHHhh
Confidence            9999999999999  98 5777776 58899999998776

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

Probab=99.70  E-value=3.2e-16  Score=150.89  Aligned_cols=148  Identities=24%  Similarity=0.391  Sum_probs=107.2

Q ss_pred             CCCCCcccccCcHHHHHH---HHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcc
Q psy450          201 VPNVSWEDIGGLSKLKAE---ILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQ  277 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~---l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~  277 (478)
                      ..+.++++++|+++....   |.+++..-      ...+++|||||||||||+|+.||...+.+|..++..       -.
T Consensus        18 mRP~~lde~vGQ~HLlg~~~~lrr~v~~~------~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv-------~~   84 (436)
T COG2256          18 LRPKSLDEVVGQEHLLGEGKPLRRAVEAG------HLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAV-------TS   84 (436)
T ss_pred             hCCCCHHHhcChHhhhCCCchHHHHHhcC------CCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccc-------cc
Confidence            346789999999887633   33333211      145699999999999999999999999999999863       34


Q ss_pred             hHHHHHHHHHHhHhC----CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEc-CCC-CCC
Q psy450          278 SEENIRNVFLKARSA----APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGAT-NRV-DLL  351 (478)
Q Consensus       278 ~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~tt-n~~-~~l  351 (478)
                      ..+.++.+++.++..    ...|||+|||+++..             .-...||-.++    ++.+++|++| ..| -.+
T Consensus        85 gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK-------------~QQD~lLp~vE----~G~iilIGATTENPsF~l  147 (436)
T COG2256          85 GVKDLREIIEEARKNRLLGRRTILFLDEIHRFNK-------------AQQDALLPHVE----NGTIILIGATTENPSFEL  147 (436)
T ss_pred             cHHHHHHHHHHHHHHHhcCCceEEEEehhhhcCh-------------hhhhhhhhhhc----CCeEEEEeccCCCCCeee
Confidence            567788899888543    247999999999973             22345666655    4556677654 445 458


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHH
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKA  382 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~  382 (478)
                      +++|++  |.. ++.+. |.+.++...+++.
T Consensus       148 n~ALlS--R~~-vf~lk-~L~~~di~~~l~r  174 (436)
T COG2256         148 NPALLS--RAR-VFELK-PLSSEDIKKLLKR  174 (436)
T ss_pred             cHHHhh--hhh-eeeee-cCCHHHHHHHHHH
Confidence            999999  874 44444 4688888888876

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.69  E-value=5.3e-16  Score=156.28  Aligned_cols=238  Identities=21%  Similarity=0.197  Sum_probs=152.2

Q ss_pred             cccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC---------CcEEEEechhhhh----
Q psy450          206 WEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR---------MNFLAVKGPELLN----  272 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~---------~~~~~v~~~~l~~----  272 (478)
                      -++++|.++..+.|...+.....  +..+.+++++||||||||++++.+++.+.         ..+++++|....+    
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~--~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~   91 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILR--GSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQV   91 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHH
Confidence            45899999999999988876543  33467799999999999999999998652         5688888754321    


Q ss_pred             ------hhh--cc--------hHHHHHHHHHHhH-hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC-C
Q psy450          273 ------KYI--GQ--------SEENIRNVFLKAR-SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV-H  334 (478)
Q Consensus       273 ------~~~--g~--------~~~~~~~~~~~a~-~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~-~  334 (478)
                            ...  |.        ....+..++.... ...+.||+|||+|.+....          +.+++.++...+.. .
T Consensus        92 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~----------~~~L~~l~~~~~~~~~  161 (365)
T TIGR02928        92 LVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDD----------DDLLYQLSRARSNGDL  161 (365)
T ss_pred             HHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCC----------cHHHHhHhccccccCC
Confidence                  111  10        1222344444443 3456799999999997321          23556666552211 1


Q ss_pred             CCCCeEEEEEcCCCC---CCCccccCCCCCC-eEEEeCCCCCHHHHHHHHHHHHhc-CC--CCCCCCHHHHHHhcC--CC
Q psy450          335 TSQDVFILGATNRVD---LLDPAILRPGRLD-KSLYVGLYEDRISQLGVLKAVVRK-FK--LSDDVSLDSLVHHFP--SQ  405 (478)
Q Consensus       335 ~~~~v~vI~ttn~~~---~ld~~l~~~~Rf~-~~i~~~~pp~~~~r~~il~~~~~~-~~--~~~~~~~~~la~~~~--~~  405 (478)
                      ...++.+|+++|.++   .+++.+.+  ||. ..+.++. ++.++..+|++..++. ..  .-.+..+..++....  .|
T Consensus       162 ~~~~v~lI~i~n~~~~~~~l~~~~~s--~~~~~~i~f~p-~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~G  238 (365)
T TIGR02928       162 DNAKVGVIGISNDLKFRENLDPRVKS--SLCEEEIIFPP-YDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHG  238 (365)
T ss_pred             CCCeEEEEEEECCcchHhhcCHHHhc--cCCcceeeeCC-CCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcC
Confidence            235788999999885   47778877  775 5688875 7899999999988752 11  111111333333220  12


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchhccCCCcccccccccccccccccccc
Q psy450          406 MSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLSVAPEL  475 (478)
Q Consensus       406 ~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~~~~~~~  475 (478)
                      . .+....+|+.|+..|..+.          ...||.+|+.+|      +..+..+...+.+.-++.|++
T Consensus       239 d-~R~al~~l~~a~~~a~~~~----------~~~it~~~v~~a------~~~~~~~~~~~~i~~l~~~~~  291 (365)
T TIGR02928       239 D-ARKAIDLLRVAGEIAEREG----------AERVTEDHVEKA------QEKIEKDRLLELIRGLPTHSK  291 (365)
T ss_pred             C-HHHHHHHHHHHHHHHHHcC----------CCCCCHHHHHHH------HHHHHHHHHHHHHHcCCHHHH
Confidence            1 2234456677776665442          346999999999      776666655555555566655

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.

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

Probab=99.68  E-value=8.6e-16  Score=164.99  Aligned_cols=226  Identities=16%  Similarity=0.241  Sum_probs=157.8

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhh--h
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELL--N  272 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~--~  272 (478)
                      .++.++|.++...++.+.+...      ...++||+||||||||+++++++...          +..++.++...+.  .
T Consensus       184 ~~~~liGR~~ei~~~i~iL~r~------~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~  257 (758)
T PRK11034        184 GIDPLIGREKELERAIQVLCRR------RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGT  257 (758)
T ss_pred             CCCcCcCCCHHHHHHHHHHhcc------CCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhccc
Confidence            4677899998888887766542      25678999999999999999999864          4566666666665  4


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC---
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD---  349 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~---  349 (478)
                      .|.|+.+..++.++..+....++||||||+|.+.+.+...+.+    ..+.+.|...+    ..+.+.+|++|+.++   
T Consensus       258 ~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~----~d~~nlLkp~L----~~g~i~vIgATt~~E~~~  329 (758)
T PRK11034        258 KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQ----VDAANLIKPLL----SSGKIRVIGSTTYQEFSN  329 (758)
T ss_pred             chhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcH----HHHHHHHHHHH----hCCCeEEEecCChHHHHH
Confidence            5778889999999998888888999999999998765321111    12222222222    356799999999875   


Q ss_pred             --CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHH---------hcCCCCCHHHHHHHHHHH
Q psy450          350 --LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVH---------HFPSQMSGADIYSICSNA  418 (478)
Q Consensus       350 --~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~---------~~~~~~sg~di~~l~~~a  418 (478)
                        ..|+++.|  ||+ .|.++. |+.+++..|++.+..++....++.+.+-|-         +.++.+-+.....++.+|
T Consensus       330 ~~~~D~AL~r--RFq-~I~v~e-Ps~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdKaidlldea  405 (758)
T PRK11034        330 IFEKDRALAR--RFQ-KIDITE-PSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEA  405 (758)
T ss_pred             HhhccHHHHh--hCc-EEEeCC-CCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHHHHHHHHHH
Confidence              47999999  996 789986 799999999998877766655554433322         234445666778888888


Q ss_pred             HHHHHHHHHhcCCCCCCCCccccHHHHHhchhccCC
Q psy450          419 WTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATA  454 (478)
Q Consensus       419 ~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~~~~  454 (478)
                      +...  |....    ......|+.+|+.+..+..++
T Consensus       406 ~a~~--~~~~~----~~~~~~v~~~~i~~v~~~~tg  435 (758)
T PRK11034        406 GARA--RLMPV----SKRKKTVNVADIESVVARIAR  435 (758)
T ss_pred             HHhh--ccCcc----cccccccChhhHHHHHHHHhC
Confidence            7432  11100    011235778888877555544

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.68  E-value=4.3e-16  Score=159.39  Aligned_cols=155  Identities=14%  Similarity=0.088  Sum_probs=115.7

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhc----CCCeEEEecccccccch-----------hhHhhhccccccccccccchhhh
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKY----NLDIFKYDEVNYLCNVK-----------YVYFKLCSFDSVNVKSNETKDQQ   83 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~----~p~ilfiDe~d~i~~~r-----------~~~~~l~~~d~~~~~~~~~~~~~   83 (478)
                      ++++|.+++. .+++.+|+ .|++.    +||||||||+|+++++|           .++++|+.||++           
T Consensus       262 Ll~kyvGete-~~ir~iF~-~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl-----------  328 (512)
T TIGR03689       262 LLNKYVGETE-RQIRLIFQ-RAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGV-----------  328 (512)
T ss_pred             hcccccchHH-HHHHHHHH-HHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhccc-----------
Confidence            4455666554 48999998 88764    79999999999999765           478999999965           


Q ss_pred             ccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCC---------ChhHHHHHHH-
Q psy450           84 CKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGF---------DASLVEYLSS-  144 (478)
Q Consensus        84 ~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~---------~~~~i~~la~-  144 (478)
                       ...++|+|||       ||||++|  |||++|+|+.|+.++|.+||+.++... .++..         ..+. ..+++ 
T Consensus       329 -~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~~-l~l~~~l~~~~g~~~a~~-~al~~~  405 (512)
T TIGR03689       329 -ESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTDS-LPLDADLAEFDGDREATA-AALIQR  405 (512)
T ss_pred             -ccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhcc-CCchHHHHHhcCCCHHHH-HHHHHH
Confidence             4456788888       9999999  999999999999999999999998642 12210         0111 22222 


Q ss_pred             ----------------------------hcCCCCHHHHHHHHHHHHHHHHHhh-cCCCCCCCHHHHHHHHHHhh
Q psy450          145 ----------------------------VTSGFERHDLTCLVRLSVKNKMLKQ-GINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       145 ----------------------------~t~G~s~~di~~l~~~a~~~a~~~~-~~~~~~it~~d~~~a~~~~~  189 (478)
                                                  .++.+||++|+++|.+|...++.+. ......++.+|+..|+..-.
T Consensus       406 av~~~~a~~~~~~~l~~~~~~g~~~~l~~~d~~sGa~i~~iv~~a~~~ai~~~~~~~~~~~~~~~l~~a~~~e~  479 (512)
T TIGR03689       406 AVDHLYATSEENRYVEVTYANGSTEVLYFKDFVSGAMIANIVDRAKKRAIKDHITGGQVGLRIEHLLAAVLDEF  479 (512)
T ss_pred             HHHHHhhhhcccceeEEEecCCceeeEeecccccHHHHHHHHHHHHHHHHHHHHhcCCcCcCHHHHHHHHHHhh
Confidence                                        2567888888888888888887542 22346888899988887543

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.66  E-value=1.6e-15  Score=158.52  Aligned_cols=210  Identities=20%  Similarity=0.269  Sum_probs=141.0

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPE  269 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~  269 (478)
                      .+.+.+|++++|++..++.+...+..      ..+.++||+||||||||++|+++.+.+          +.+|+.++|..
T Consensus        58 ~~rp~~f~~iiGqs~~i~~l~~al~~------~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~  131 (531)
T TIGR02902        58 KTRPKSFDEIIGQEEGIKALKAALCG------PNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATT  131 (531)
T ss_pred             hhCcCCHHHeeCcHHHHHHHHHHHhC------CCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEcccc
Confidence            34567899999999999988865321      226689999999999999999998643          35789998753


Q ss_pred             h-------hhhhhcchHHH----------------HHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHH
Q psy450          270 L-------LNKYIGQSEEN----------------IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQL  326 (478)
Q Consensus       270 l-------~~~~~g~~~~~----------------~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~l  326 (478)
                      .       .....+.....                ....+..   ....+|||||++.|.+             ...+.|
T Consensus       132 ~~~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~---a~gG~L~IdEI~~L~~-------------~~q~~L  195 (531)
T TIGR02902       132 ARFDERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTR---AHGGVLFIDEIGELHP-------------VQMNKL  195 (531)
T ss_pred             ccCCccccchhhcCCcccchhccccccccCCcccccCchhhc---cCCcEEEEechhhCCH-------------HHHHHH
Confidence            1       11111110000                0011222   2346999999999973             344555


Q ss_pred             HHhhcCCC--------------------------CCCC-eEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHH
Q psy450          327 LAEMDGVH--------------------------TSQD-VFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGV  379 (478)
Q Consensus       327 l~~l~~~~--------------------------~~~~-v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~i  379 (478)
                      +..++.-.                          ...+ .++++||+.|+.+++++++  |+. .++++. ++.+++..|
T Consensus       196 L~~Le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrs--R~~-~I~f~p-L~~eei~~I  271 (531)
T TIGR02902       196 LKVLEDRKVFLDSAYYNSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRS--RCV-EIFFRP-LLDEEIKEI  271 (531)
T ss_pred             HHHHHhCeeeeccccccccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhh--hhh-eeeCCC-CCHHHHHHH
Confidence            55443210                          0112 4455677889999999999  984 566764 678899999


Q ss_pred             HHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          380 LKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       380 l~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      ++..+++.++.-+. .++.++.++   .+++++.++++.|+..|..+.          ...||.+|+.++
T Consensus       272 l~~~a~k~~i~is~~al~~I~~y~---~n~Rel~nll~~Aa~~A~~~~----------~~~It~~dI~~v  328 (531)
T TIGR02902       272 AKNAAEKIGINLEKHALELIVKYA---SNGREAVNIVQLAAGIALGEG----------RKRILAEDIEWV  328 (531)
T ss_pred             HHHHHHHcCCCcCHHHHHHHHHhh---hhHHHHHHHHHHHHHHHhhCC----------CcEEcHHHHHHH
Confidence            99998876654322 245555443   378999999999987665432          357999999999

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.

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.66  E-value=2.4e-15  Score=157.64  Aligned_cols=236  Identities=17%  Similarity=0.202  Sum_probs=155.5

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCce-EEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhhhh--
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSG-LLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELLNK--  273 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~-iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~~~--  273 (478)
                      +.|.|.++..++|..++.......+  +.+ ++++|+||||||++++.+.+++          ...+++++|..+...  
T Consensus       755 D~LPhREeEIeeLasfL~paIkgsg--pnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~s  832 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQSG--SNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNA  832 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhcCC--CCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHH
Confidence            6899999999999998887765332  444 5699999999999999998766          256789998443211  


Q ss_pred             --------h------hc-chHHHHHHHHHHhH--hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCC
Q psy450          274 --------Y------IG-QSEENIRNVFLKAR--SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTS  336 (478)
Q Consensus       274 --------~------~g-~~~~~~~~~~~~a~--~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  336 (478)
                              .      .| .+...+..+|....  .....||+|||||.|..+.          +.++..|+.+..  ...
T Consensus       833 IYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~----------QDVLYnLFR~~~--~s~  900 (1164)
T PTZ00112        833 AYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKT----------QKVLFTLFDWPT--KIN  900 (1164)
T ss_pred             HHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccH----------HHHHHHHHHHhh--ccC
Confidence                    1      01 12334555665542  2335799999999998531          456777776644  234


Q ss_pred             CCeEEEEEcCC---CCCCCccccCCCCCCeE-EEeCCCCCHHHHHHHHHHHHhcCC-CCCCCCHHHHHHhcCCCCCHHHH
Q psy450          337 QDVFILGATNR---VDLLDPAILRPGRLDKS-LYVGLYEDRISQLGVLKAVVRKFK-LSDDVSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       337 ~~v~vI~ttn~---~~~ld~~l~~~~Rf~~~-i~~~~pp~~~~r~~il~~~~~~~~-~~~~~~~~~la~~~~~~~sg~di  411 (478)
                      .+++||+++|.   ++.+++.+++  ||... +.|+ |++.+++.+||+..+.... +-.+.-+..+|+.. +..+ +|+
T Consensus       901 SKLiLIGISNdlDLperLdPRLRS--RLg~eeIvF~-PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkV-Aq~S-GDA  975 (1164)
T PTZ00112        901 SKLVLIAISNTMDLPERLIPRCRS--RLAFGRLVFS-PYKGDEIEKIIKERLENCKEIIDHTAIQLCARKV-ANVS-GDI  975 (1164)
T ss_pred             CeEEEEEecCchhcchhhhhhhhh--ccccccccCC-CCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhh-hhcC-CHH
Confidence            57999999987   4557788888  77653 6665 5899999999999887542 11222255555544 2333 477


Q ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchhccCCCcccccccccccccccccccccc
Q psy450          412 YSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLSVAPELLV  477 (478)
Q Consensus       412 ~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~~~~~~~~~  477 (478)
                      +.++.... .|....         ....|+.+|+.+|      +.++..+.-.+.+.-++.|++||
T Consensus       976 RKALDILR-rAgEik---------egskVT~eHVrkA------leeiE~srI~e~IktLPlHqKLV 1025 (1164)
T PTZ00112        976 RKALQICR-KAFENK---------RGQKIVPRDITEA------TNQLFDSPLTNAINYLPWPFKMF 1025 (1164)
T ss_pred             HHHHHHHH-HHHhhc---------CCCccCHHHHHHH------HHHHHhhhHHHHHHcCCHHHHHH
Confidence            75543222 222211         1337999999999      77776665566666667777664

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.65  E-value=5.8e-15  Score=150.32  Aligned_cols=241  Identities=22%  Similarity=0.244  Sum_probs=153.3

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhh------
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELL------  271 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~------  271 (478)
                      ...-+.+.|.++..+.|...+.....  +..+.+++++||||||||++++.+++.+     +..++++++....      
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            33446789999999999888865543  3336679999999999999999999877     5678899885332      


Q ss_pred             ----hhhhc-------ch-HHHHHHHHHHhHh-CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCC
Q psy450          272 ----NKYIG-------QS-EENIRNVFLKARS-AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD  338 (478)
Q Consensus       272 ----~~~~g-------~~-~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  338 (478)
                          ....+       .+ ...+..+.+.... ..+.||+|||+|.+....+         ...++.++..++... ..+
T Consensus       104 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~---------~~~l~~l~~~~~~~~-~~~  173 (394)
T PRK00411        104 SEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEG---------NDVLYSLLRAHEEYP-GAR  173 (394)
T ss_pred             HHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCC---------chHHHHHHHhhhccC-CCe
Confidence                11111       11 2223333333332 3568999999999972211         245677776665432 337


Q ss_pred             eEEEEEcCCCC---CCCccccCCCCCC-eEEEeCCCCCHHHHHHHHHHHHhcCC---CCCCCCHHHHHHhcCCCCCHHHH
Q psy450          339 VFILGATNRVD---LLDPAILRPGRLD-KSLYVGLYEDRISQLGVLKAVVRKFK---LSDDVSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       339 v~vI~ttn~~~---~ld~~l~~~~Rf~-~~i~~~~pp~~~~r~~il~~~~~~~~---~~~~~~~~~la~~~~~~~sg~di  411 (478)
                      +.+|+++|.++   .+++.+.+  ||. ..+.++. ++.++..+|++..++.-.   .-.+..+..+++.+ .+.+| |+
T Consensus       174 v~vI~i~~~~~~~~~l~~~~~s--~~~~~~i~f~p-y~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~-~~~~G-d~  248 (394)
T PRK00411        174 IGVIGISSDLTFLYILDPRVKS--VFRPEEIYFPP-YTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLT-AREHG-DA  248 (394)
T ss_pred             EEEEEEECCcchhhhcCHHHHh--cCCcceeecCC-CCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHH-HHhcC-cH
Confidence            88899988764   46777776  664 4677774 789999999988775321   11222245555544 33333 44


Q ss_pred             H---HHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchhccCCCccccccccccccccccccccc
Q psy450          412 Y---SICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLSVAPELL  476 (478)
Q Consensus       412 ~---~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~~~~~~~~  476 (478)
                      +   .+|..|+..|..+.          ...||.+|+.+|      +.++.++.-.+.+.-++.|+++
T Consensus       249 r~a~~ll~~a~~~a~~~~----------~~~I~~~~v~~a------~~~~~~~~~~~~~~~L~~~~k~  300 (394)
T PRK00411        249 RVAIDLLRRAGLIAEREG----------SRKVTEEDVRKA------YEKSEIVHLSEVLRTLPLHEKL  300 (394)
T ss_pred             HHHHHHHHHHHHHHHHcC----------CCCcCHHHHHHH------HHHHHHHHHHHHHhcCCHHHHH
Confidence            4   56666666555442          457999999999      7776655544444444444443

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

Probab=99.65  E-value=6.1e-16  Score=148.97  Aligned_cols=139  Identities=7%  Similarity=-0.031  Sum_probs=110.3

Q ss_pred             HHHHhhccCccchhhhhHHHHhhhh-----cCCCeEEEecccccccch----------h-hHhhhccccccccccccchh
Q psy450           18 HLLTNYFATPRYHHLNDIVKINLKK-----YNLDIFKYDEVNYLCNVK----------Y-VYFKLCSFDSVNVKSNETKD   81 (478)
Q Consensus        18 ~~~~~~~~~~~~~~~~~if~~~a~~-----~~p~ilfiDe~d~i~~~r----------~-~~~~l~~~d~~~~~~~~~~~   81 (478)
                      .|+++|.|++.. .||.+|+ .|++     .+||||||||||++++.|          . .++||+.||+...    +..
T Consensus       183 eL~sk~vGEsEk-~IR~~F~-~A~~~a~~~~aPcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~----v~l  256 (413)
T PLN00020        183 ELESENAGEPGK-LIRQRYR-EAADIIKKKGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTN----VSL  256 (413)
T ss_pred             HhhcCcCCcHHH-HHHHHHH-HHHHHhhccCCCeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCcc----ccc
Confidence            567788888877 9999999 8875     479999999999999976          2 3688899996421    011


Q ss_pred             hhc----cCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCC
Q psy450           82 QQC----KQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSG  148 (478)
Q Consensus        82 ~~~----~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G  148 (478)
                      .|.    +....|+||+       |||||+|  |||+.+  ..|+.++|.+||+.++++.  .+. ..++ ..|+..++|
T Consensus       257 ~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRfDk~i--~lPd~e~R~eIL~~~~r~~--~l~-~~dv-~~Lv~~f~g  330 (413)
T PLN00020        257 GGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKFY--WAPTREDRIGVVHGIFRDD--GVS-REDV-VKLVDTFPG  330 (413)
T ss_pred             cccccccccCCCceEEEeCCCcccCCHhHcCCCCCCcee--CCCCHHHHHHHHHHHhccC--CCC-HHHH-HHHHHcCCC
Confidence            121    3456788888       9999999  999974  6899999999999999886  333 4666 999999988


Q ss_pred             ----CCHHHHHHHHHHHHHHHHHh
Q psy450          149 ----FERHDLTCLVRLSVKNKMLK  168 (478)
Q Consensus       149 ----~s~~di~~l~~~a~~~a~~~  168 (478)
                          |+|+--..++.++..+.+.+
T Consensus       331 q~~Df~GAlrar~yd~~v~~~i~~  354 (413)
T PLN00020        331 QPLDFFGALRARVYDDEVRKWIAE  354 (413)
T ss_pred             CCchhhhHHHHHHHHHHHHHHHHH
Confidence                78888888888888888744

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.65  E-value=1.8e-15  Score=156.10  Aligned_cols=185  Identities=15%  Similarity=0.210  Sum_probs=129.9

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +...+|++++|++++++.|...+..     +..++.+||+||+|+|||++|+.+++.+++.                   
T Consensus        10 YRPqtFddVIGQe~vv~~L~~al~~-----gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC   84 (700)
T PRK12323         10 WRPRDFTTLVGQEHVVRALTHALEQ-----QRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRAC   84 (700)
T ss_pred             hCCCcHHHHcCcHHHHHHHHHHHHh-----CCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHH
Confidence            4567899999999999999887753     2236678999999999999999999998761                   


Q ss_pred             ----------EEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHH
Q psy450          262 ----------FLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLL  327 (478)
Q Consensus       262 ----------~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll  327 (478)
                                ++.++...      ......++++.+...    .....|++|||+|.|.             ....+.||
T Consensus        85 ~~I~aG~hpDviEIdAas------~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls-------------~~AaNALL  145 (700)
T PRK12323         85 TEIDAGRFVDYIEMDAAS------NRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLT-------------NHAFNAML  145 (700)
T ss_pred             HHHHcCCCCcceEecccc------cCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcC-------------HHHHHHHH
Confidence                      22222210      122344566655542    3445799999999996             35678999


Q ss_pred             HhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC-HHHHHHhcCCCC
Q psy450          328 AEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS-LDSLVHHFPSQM  406 (478)
Q Consensus       328 ~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~-~~~la~~~~~~~  406 (478)
                      +.|+.  ...++++|.+||.++.+.+.+++  |+ ..+.|.. ++.++..+.++..+.+.++..+.+ +..+++.. + -
T Consensus       146 KTLEE--PP~~v~FILaTtep~kLlpTIrS--RC-q~f~f~~-ls~eei~~~L~~Il~~Egi~~d~eAL~~IA~~A-~-G  217 (700)
T PRK12323        146 KTLEE--PPEHVKFILATTDPQKIPVTVLS--RC-LQFNLKQ-MPPGHIVSHLDAILGEEGIAHEVNALRLLAQAA-Q-G  217 (700)
T ss_pred             Hhhcc--CCCCceEEEEeCChHhhhhHHHH--HH-HhcccCC-CChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-C-C
Confidence            99985  45578888899999999999999  98 5667765 577888888887776555443322 44555554 3 3


Q ss_pred             CHHHHHHHHHH
Q psy450          407 SGADIYSICSN  417 (478)
Q Consensus       407 sg~di~~l~~~  417 (478)
                      +.++..+++..
T Consensus       218 s~RdALsLLdQ  228 (700)
T PRK12323        218 SMRDALSLTDQ  228 (700)
T ss_pred             CHHHHHHHHHH
Confidence            44455555443

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.64  E-value=5.6e-15  Score=149.06  Aligned_cols=172  Identities=17%  Similarity=0.202  Sum_probs=120.8

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++++|++.+...|...+...     ..++.+||+||+|||||++|+.+|+.+++.                   
T Consensus        12 yRP~~f~dvVGQe~iv~~L~~~i~~~-----ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~   86 (484)
T PRK14956         12 YRPQFFRDVIHQDLAIGALQNALKSG-----KIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITK   86 (484)
T ss_pred             hCCCCHHHHhChHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHc
Confidence            45678999999999999888776532     225669999999999999999999998753                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           ++.++...      ......++++.+.+.    .+...|++|||+|.+.             ....+.|++.++.
T Consensus        87 g~~~dviEIdaas------~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls-------------~~A~NALLKtLEE  147 (484)
T PRK14956         87 GISSDVLEIDAAS------NRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLT-------------DQSFNALLKTLEE  147 (484)
T ss_pred             cCCccceeechhh------cccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcC-------------HHHHHHHHHHhhc
Confidence                 22332211      112334455444332    3445799999999996             3567888998874


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhc
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHF  402 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~  402 (478)
                        ...++++|.+|+.++.+.+.+++  |+. .+.|.. ++.++....++..+...++.-+ ..+..++...
T Consensus       148 --Pp~~viFILaTte~~kI~~TI~S--RCq-~~~f~~-ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S  212 (484)
T PRK14956        148 --PPAHIVFILATTEFHKIPETILS--RCQ-DFIFKK-VPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKG  212 (484)
T ss_pred             --CCCceEEEeecCChhhccHHHHh--hhh-eeeecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Confidence              45678888899999999999999  985 456654 4667777788877766554322 2255555543

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.64  E-value=6.7e-15  Score=153.84  Aligned_cols=187  Identities=16%  Similarity=0.220  Sum_probs=130.4

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +...+|++++|++++++.|...+..     +..++.+||+||+|||||++++.+++.+++.                   
T Consensus        10 YRPqtFdEVIGQe~Vv~~L~~aL~~-----gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~   84 (830)
T PRK07003         10 WRPKDFASLVGQEHVVRALTHALDG-----GRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDE   84 (830)
T ss_pred             hCCCcHHHHcCcHHHHHHHHHHHhc-----CCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhc
Confidence            4567899999999999999887642     2236678999999999999999999988652                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           +++++..+      ......++.+++.+.    .....|++|||+|.|.             ....+.|++.|+.
T Consensus        85 G~h~DviEIDAas------~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT-------------~~A~NALLKtLEE  145 (830)
T PRK07003         85 GRFVDYVEMDAAS------NRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLT-------------NHAFNAMLKTLEE  145 (830)
T ss_pred             CCCceEEEecccc------cccHHHHHHHHHHHHhccccCCceEEEEeChhhCC-------------HHHHHHHHHHHHh
Confidence                 22222211      112334566665543    2345799999999996             3467889998885


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di  411 (478)
                        ...++.+|.+||.++.|.+.|++  |+ ..+.|.. .+.++...+|+..+++.++..+ ..+..|++.. +| +.++.
T Consensus       146 --PP~~v~FILaTtd~~KIp~TIrS--RC-q~f~Fk~-Ls~eeIv~~L~~Il~~EgI~id~eAL~lIA~~A-~G-smRdA  217 (830)
T PRK07003        146 --PPPHVKFILATTDPQKIPVTVLS--RC-LQFNLKQ-MPAGHIVSHLERILGEERIAFEPQALRLLARAA-QG-SMRDA  217 (830)
T ss_pred             --cCCCeEEEEEECChhhccchhhh--he-EEEecCC-cCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CC-CHHHH
Confidence              34578889999999999999999  98 5666764 6788888888888766554432 2255566654 33 33444


Q ss_pred             HHHHHHHH
Q psy450          412 YSICSNAW  419 (478)
Q Consensus       412 ~~l~~~a~  419 (478)
                      .+++..+.
T Consensus       218 LsLLdQAi  225 (830)
T PRK07003        218 LSLTDQAI  225 (830)
T ss_pred             HHHHHHHH
Confidence            44444433

>PRK04195 replication factor C large subunit; Provisional

Probab=99.64  E-value=8.2e-15  Score=152.28  Aligned_cols=192  Identities=21%  Similarity=0.239  Sum_probs=134.3

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcch
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQS  278 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~  278 (478)
                      ..+.+.++++++|++++++.|...+....  .|.+++++||+||||||||++|+++|++++.+++.+++++...      
T Consensus         6 eKyrP~~l~dlvg~~~~~~~l~~~l~~~~--~g~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~------   77 (482)
T PRK04195          6 EKYRPKTLSDVVGNEKAKEQLREWIESWL--KGKPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRT------   77 (482)
T ss_pred             hhcCCCCHHHhcCCHHHHHHHHHHHHHHh--cCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEccccccc------
Confidence            44567789999999999999999887655  3444778999999999999999999999999999999876432      


Q ss_pred             HHHHHHHHHHhHh------CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCC
Q psy450          279 EENIRNVFLKARS------AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD  352 (478)
Q Consensus       279 ~~~~~~~~~~a~~------~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld  352 (478)
                      ...+..+...+..      ..+.+|+|||+|.+.+..+         ......++..++.    .+..+|+++|.+..+.
T Consensus        78 ~~~i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~~~d---------~~~~~aL~~~l~~----~~~~iIli~n~~~~~~  144 (482)
T PRK04195         78 ADVIERVAGEAATSGSLFGARRKLILLDEVDGIHGNED---------RGGARAILELIKK----AKQPIILTANDPYDPS  144 (482)
T ss_pred             HHHHHHHHHHhhccCcccCCCCeEEEEecCcccccccc---------hhHHHHHHHHHHc----CCCCEEEeccCccccc
Confidence            1223333332221      2467999999999975221         1234555555552    2345677889988887


Q ss_pred             c-cccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHH
Q psy450          353 P-AILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWT  420 (478)
Q Consensus       353 ~-~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~  420 (478)
                      + .+++  |+ ..+.|+. |+..+...+++..+...++.-+ ..+..|+..+     ++|++.+++....
T Consensus       145 ~k~Lrs--r~-~~I~f~~-~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s-----~GDlR~ain~Lq~  205 (482)
T PRK04195        145 LRELRN--AC-LMIEFKR-LSTRSIVPVLKRICRKEGIECDDEALKEIAERS-----GGDLRSAINDLQA  205 (482)
T ss_pred             hhhHhc--cc-eEEEecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-----CCCHHHHHHHHHH
Confidence            7 6665  54 5788875 6888888999888866554322 2366666654     3578777665543

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.64  E-value=3.5e-15  Score=153.92  Aligned_cols=200  Identities=17%  Similarity=0.278  Sum_probs=124.1

Q ss_pred             CCCCCCCcccccCcHH---HHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhh
Q psy450          199 PSVPNVSWEDIGGLSK---LKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPEL  270 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~---~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l  270 (478)
                      .-.|..+|++++.-+.   +...+.+....    ++...++++||||||||||+|++++++++     +..++++++.++
T Consensus       114 ~l~~~~tfd~fv~g~~n~~a~~~~~~~~~~----~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~  189 (450)
T PRK00149        114 PLNPKYTFDNFVVGKSNRLAHAAALAVAEN----PGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKF  189 (450)
T ss_pred             CCCCCCcccccccCCCcHHHHHHHHHHHhC----cCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHH
Confidence            3457778998653222   33333333322    23334569999999999999999999987     566889999887


Q ss_pred             hhhhhcchHHH-HHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          271 LNKYIGQSEEN-IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       271 ~~~~~g~~~~~-~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      ...+....... ...+....+  .+.+|+|||+|.+.++.           .....++..++.....++.+||+++..|.
T Consensus       190 ~~~~~~~~~~~~~~~~~~~~~--~~dlLiiDDi~~l~~~~-----------~~~~~l~~~~n~l~~~~~~iiits~~~p~  256 (450)
T PRK00149        190 TNDFVNALRNNTMEEFKEKYR--SVDVLLIDDIQFLAGKE-----------RTQEEFFHTFNALHEAGKQIVLTSDRPPK  256 (450)
T ss_pred             HHHHHHHHHcCcHHHHHHHHh--cCCEEEEehhhhhcCCH-----------HHHHHHHHHHHHHHHCCCcEEEECCCCHH
Confidence            66554332221 122222222  46799999999987532           11222333333222333445665555554


Q ss_pred             C---CCccccCCCCCCe--EEEeCCCCCHHHHHHHHHHHHhcCC--CCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy450          350 L---LDPAILRPGRLDK--SLYVGLYEDRISQLGVLKAVVRKFK--LSDDVSLDSLVHHFPSQMSGADIYSICSNAWTR  421 (478)
Q Consensus       350 ~---ld~~l~~~~Rf~~--~i~~~~pp~~~~r~~il~~~~~~~~--~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~  421 (478)
                      .   +++.+++  ||..  .+.+. ||+.++|..|++..+...+  +++++ ++.|+.++  +-+.+++..++......
T Consensus       257 ~l~~l~~~l~S--Rl~~gl~v~i~-~pd~~~r~~il~~~~~~~~~~l~~e~-l~~ia~~~--~~~~R~l~~~l~~l~~~  329 (450)
T PRK00149        257 ELPGLEERLRS--RFEWGLTVDIE-PPDLETRIAILKKKAEEEGIDLPDEV-LEFIAKNI--TSNVRELEGALNRLIAY  329 (450)
T ss_pred             HHHHHHHHHHh--HhcCCeeEEec-CCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHcCc--CCCHHHHHHHHHHHHHH
Confidence            4   6788888  9975  56666 4899999999999887544  34433 77777765  33556666666655433

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.63  E-value=8.3e-15  Score=150.13  Aligned_cols=202  Identities=17%  Similarity=0.251  Sum_probs=134.0

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC--------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM--------------------  260 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~--------------------  260 (478)
                      +.+.+|++++|++++++.|...+..     +..++++||+||||||||++|+++|+.+++                    
T Consensus         8 yRP~~~~divGq~~i~~~L~~~i~~-----~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~   82 (472)
T PRK14962          8 YRPKTFSEVVGQDHVKKLIINALKK-----NSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDE   82 (472)
T ss_pred             HCCCCHHHccCcHHHHHHHHHHHHc-----CCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhc
Confidence            4567899999999998888776543     223667999999999999999999998865                    


Q ss_pred             ----cEEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          261 ----NFLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       261 ----~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                          .++.++.+.      ......++.+.+.+..    ....|++|||+|.+.             ....+.|+..++.
T Consensus        83 g~~~dv~el~aa~------~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt-------------~~a~~~LLk~LE~  143 (472)
T PRK14962         83 GTFMDVIELDAAS------NRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLT-------------KEAFNALLKTLEE  143 (472)
T ss_pred             CCCCccEEEeCcc------cCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhH-------------HHHHHHHHHHHHh
Confidence                244444321      1122345555544432    235699999999986             2346778888874


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCC-CCCHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSD-DVSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~-~~~~~~la~~~~~~~sg~di  411 (478)
                        ....+++|++|+.|..+++++++  |+. .+.+.. ++.++...+++..++..++.- +..+..++.++ + -..+.+
T Consensus       144 --p~~~vv~Ilattn~~kl~~~L~S--R~~-vv~f~~-l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s-~-GdlR~a  215 (472)
T PRK14962        144 --PPSHVVFVLATTNLEKVPPTIIS--RCQ-VIEFRN-ISDELIIKRLQEVAEAEGIEIDREALSFIAKRA-S-GGLRDA  215 (472)
T ss_pred             --CCCcEEEEEEeCChHhhhHHHhc--CcE-EEEECC-ccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh-C-CCHHHH
Confidence              34467777777788899999999  884 677775 688888888888776544322 22266677655 2 223333


Q ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          412 YSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       412 ~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      .+.+..++.     . .        ...||.+|+.++
T Consensus       216 ln~Le~l~~-----~-~--------~~~It~e~V~~~  238 (472)
T PRK14962        216 LTMLEQVWK-----F-S--------EGKITLETVHEA  238 (472)
T ss_pred             HHHHHHHHH-----h-c--------CCCCCHHHHHHH
Confidence            333332221     1 0        113889998888

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.63  E-value=1e-14  Score=148.60  Aligned_cols=201  Identities=17%  Similarity=0.275  Sum_probs=123.8

Q ss_pred             CCCCCCcccc-cCcHH--HHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhh
Q psy450          200 SVPNVSWEDI-GGLSK--LKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELL  271 (478)
Q Consensus       200 ~~~~~~~~~i-~g~~~--~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~  271 (478)
                      -.+..+|+++ +|.+.  +...+.+...    .++....+++||||+|+|||+|++++++++     +..++++++.++.
T Consensus       103 l~~~~tfd~fi~g~~n~~a~~~~~~~~~----~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~  178 (405)
T TIGR00362       103 LNPKYTFDNFVVGKSNRLAHAAALAVAE----NPGKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFT  178 (405)
T ss_pred             CCCCCcccccccCCcHHHHHHHHHHHHh----CcCccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHH
Confidence            3567889984 45333  2222222222    233335679999999999999999999987     5778999988876


Q ss_pred             hhhhcchHH-HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          272 NKYIGQSEE-NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       272 ~~~~g~~~~-~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                      ..+...... ....+....+  .+.+|+|||+|.+.++.           .....++..++.....+..+||+++..|..
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~--~~dlLiiDDi~~l~~~~-----------~~~~~l~~~~n~~~~~~~~iiits~~~p~~  245 (405)
T TIGR00362       179 NDFVNALRNNKMEEFKEKYR--SVDLLLIDDIQFLAGKE-----------RTQEEFFHTFNALHENGKQIVLTSDRPPKE  245 (405)
T ss_pred             HHHHHHHHcCCHHHHHHHHH--hCCEEEEehhhhhcCCH-----------HHHHHHHHHHHHHHHCCCCEEEecCCCHHH
Confidence            554322111 1112222222  24699999999987532           111223333322222334456655555543


Q ss_pred             ---CCccccCCCCCCe--EEEeCCCCCHHHHHHHHHHHHhcCCCCC-CCCHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy450          351 ---LDPAILRPGRLDK--SLYVGLYEDRISQLGVLKAVVRKFKLSD-DVSLDSLVHHFPSQMSGADIYSICSNAWTRA  422 (478)
Q Consensus       351 ---ld~~l~~~~Rf~~--~i~~~~pp~~~~r~~il~~~~~~~~~~~-~~~~~~la~~~~~~~sg~di~~l~~~a~~~a  422 (478)
                         +++.+++  ||..  .+.++. |+.++|..|++..++..++.- +..++.++.++  .-+.+++..++......+
T Consensus       246 l~~l~~~l~S--Rl~~g~~v~i~~-pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~--~~~~r~l~~~l~~l~~~a  318 (405)
T TIGR00362       246 LPGLEERLRS--RFEWGLVVDIEP-PDLETRLAILQKKAEEEGLELPDEVLEFIAKNI--RSNVRELEGALNRLLAYA  318 (405)
T ss_pred             Hhhhhhhhhh--hccCCeEEEeCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhc--CCCHHHHHHHHHHHHHHH
Confidence               5678888  9975  566664 799999999999887655432 22377788776  346677777776655444

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).

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.61  E-value=1.1e-14  Score=159.41  Aligned_cols=198  Identities=18%  Similarity=0.270  Sum_probs=137.7

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhh-
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELL-  271 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~-  271 (478)
                      +-.+++++|.++...++.+.+...      ...+++|+||||||||++++.+|+.+          +.+++.++...+. 
T Consensus       183 ~~~ld~~iGr~~ei~~~i~~l~r~------~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~a  256 (852)
T TIGR03345       183 EGKIDPVLGRDDEIRQMIDILLRR------RQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQA  256 (852)
T ss_pred             CCCCCcccCCHHHHHHHHHHHhcC------CcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhc
Confidence            456889999999766665544221      14578999999999999999999976          2557777777665 


Q ss_pred             -hhhhcchHHHHHHHHHHhHh-CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          272 -NKYIGQSEENIRNVFLKARS-AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       272 -~~~~g~~~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                       ..+.|+.+..++.+++.+.. ..++||||||+|.+.+.+++.+..     ..-+.|.-.+    ..+.+.+|++|+..+
T Consensus       257 g~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~-----d~~n~Lkp~l----~~G~l~~IgaTT~~e  327 (852)
T TIGR03345       257 GASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQG-----DAANLLKPAL----ARGELRTIAATTWAE  327 (852)
T ss_pred             ccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccc-----cHHHHhhHHh----hCCCeEEEEecCHHH
Confidence             35788899999999998864 467899999999998754322111     1222233333    356789999998753


Q ss_pred             -----CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCC-----CCCHHHHHHhcCCCCC-----HHHHHHH
Q psy450          350 -----LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSD-----DVSLDSLVHHFPSQMS-----GADIYSI  414 (478)
Q Consensus       350 -----~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~-----~~~~~~la~~~~~~~s-----g~di~~l  414 (478)
                           .+|++|.|  ||. .|.++. |+.++...||+.+.+.+....     +..+..++..+ .+|.     +..--.+
T Consensus       328 ~~~~~~~d~AL~r--Rf~-~i~v~e-ps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls-~ryi~~r~LPDKAIdl  402 (852)
T TIGR03345       328 YKKYFEKDPALTR--RFQ-VVKVEE-PDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELS-HRYIPGRQLPDKAVSL  402 (852)
T ss_pred             HhhhhhccHHHHH--hCe-EEEeCC-CCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHc-ccccccccCccHHHHH
Confidence                 38999999  995 788986 799999999877765543222     22244555544 4443     3344566


Q ss_pred             HHHHHH
Q psy450          415 CSNAWT  420 (478)
Q Consensus       415 ~~~a~~  420 (478)
                      +.+|+.
T Consensus       403 ldea~a  408 (852)
T TIGR03345       403 LDTACA  408 (852)
T ss_pred             HHHHHH
Confidence            666653

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.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.61  E-value=1.2e-14  Score=148.56  Aligned_cols=202  Identities=14%  Similarity=0.246  Sum_probs=121.7

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELLNK  273 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~~~  273 (478)
                      +-.|..+|++++.-+............. ..++. ..+++||||||+|||+|++++++++     +..++++++.++...
T Consensus        97 ~l~~~~tFdnFv~g~~n~~a~~~~~~~~-~~~~~-~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~  174 (440)
T PRK14088         97 PLNPDYTFENFVVGPGNSFAYHAALEVA-KNPGR-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLND  174 (440)
T ss_pred             CCCCCCcccccccCCchHHHHHHHHHHH-hCcCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHH
Confidence            4467889999873333332222222222 22232 4569999999999999999999986     457889998887665


Q ss_pred             hhcchH-HHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC--
Q psy450          274 YIGQSE-ENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL--  350 (478)
Q Consensus       274 ~~g~~~-~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~--  350 (478)
                      +..... ..+.. |.......+.+|+|||++.+.++.           .....++..++.....++.+|+++.+.|..  
T Consensus       175 ~~~~~~~~~~~~-f~~~~~~~~dvLlIDDi~~l~~~~-----------~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~  242 (440)
T PRK14088        175 LVDSMKEGKLNE-FREKYRKKVDVLLIDDVQFLIGKT-----------GVQTELFHTFNELHDSGKQIVICSDREPQKLS  242 (440)
T ss_pred             HHHHHhcccHHH-HHHHHHhcCCEEEEechhhhcCcH-----------HHHHHHHHHHHHHHHcCCeEEEECCCCHHHHH
Confidence            432211 11222 222222357899999999986432           111223223332223344556655566654  


Q ss_pred             -CCccccCCCCCCeEEEeCC-CCCHHHHHHHHHHHHhc--CCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHH
Q psy450          351 -LDPAILRPGRLDKSLYVGL-YEDRISQLGVLKAVVRK--FKLSDDVSLDSLVHHFPSQMSGADIYSICSNAW  419 (478)
Q Consensus       351 -ld~~l~~~~Rf~~~i~~~~-pp~~~~r~~il~~~~~~--~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~  419 (478)
                       +.+.+.+  ||...+.+.+ ||+.+.|..|++..++.  +.+++++ +..|+.++  .-+.+++..++....
T Consensus       243 ~l~~rL~S--R~~~gl~v~i~~pd~e~r~~IL~~~~~~~~~~l~~ev-~~~Ia~~~--~~~~R~L~g~l~~l~  310 (440)
T PRK14088        243 EFQDRLVS--RFQMGLVAKLEPPDEETRKKIARKMLEIEHGELPEEV-LNFVAENV--DDNLRRLRGAIIKLL  310 (440)
T ss_pred             HHHHHHhh--HHhcCceEeeCCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHhcc--ccCHHHHHHHHHHHH
Confidence             5567888  8875554443 58999999999888764  3444443 77777765  235566666665543

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.60  E-value=3.6e-14  Score=146.01  Aligned_cols=212  Identities=18%  Similarity=0.197  Sum_probs=143.8

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEE------------ec
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAV------------KG  267 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v------------~~  267 (478)
                      .+.+.+|++++|++.+++.|...+..     +..+.++||+||||||||++|+++|+.+++.....            +|
T Consensus        14 kyRP~~f~dliGq~~vv~~L~~ai~~-----~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C   88 (507)
T PRK06645         14 KYRPSNFAELQGQEVLVKVLSYTILN-----DRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNC   88 (507)
T ss_pred             hhCCCCHHHhcCcHHHHHHHHHHHHc-----CCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHH
Confidence            45677899999999999988775532     33367899999999999999999999986531100            00


Q ss_pred             hhhhhh----------hhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC
Q psy450          268 PELLNK----------YIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV  333 (478)
Q Consensus       268 ~~l~~~----------~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~  333 (478)
                      ..+...          ........++.+++.+..    ....|++|||+|.+.             ...++.|++.++. 
T Consensus        89 ~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls-------------~~a~naLLk~LEe-  154 (507)
T PRK06645         89 ISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLS-------------KGAFNALLKTLEE-  154 (507)
T ss_pred             HHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcC-------------HHHHHHHHHHHhh-
Confidence            011000          012234567777766642    235699999999886             3457788888884 


Q ss_pred             CCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHH
Q psy450          334 HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIY  412 (478)
Q Consensus       334 ~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~  412 (478)
                       ....+++|.+|+.++.+++.+++  |+ ..+.+.. ++.++...+++..+++.++.-+ ..+..++..+ + -+.+++.
T Consensus       155 -pp~~~vfI~aTte~~kI~~tI~S--Rc-~~~ef~~-ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s-~-GslR~al  227 (507)
T PRK06645        155 -PPPHIIFIFATTEVQKIPATIIS--RC-QRYDLRR-LSFEEIFKLLEYITKQENLKTDIEALRIIAYKS-E-GSARDAV  227 (507)
T ss_pred             -cCCCEEEEEEeCChHHhhHHHHh--cc-eEEEccC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-C-CCHHHHH
Confidence             34567777788888899999998  88 4677765 6889999999988877665433 2256677765 3 3666766


Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          413 SICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       413 ~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      +.+..+...+-.           ....||.+++.+.
T Consensus       228 ~~Ldkai~~~~~-----------~~~~It~~~V~~l  252 (507)
T PRK06645        228 SILDQAASMSAK-----------SDNIISPQVINQM  252 (507)
T ss_pred             HHHHHHHHhhcc-----------CCCCcCHHHHHHH
Confidence            666665432210           1224777777766

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.60  E-value=3e-14  Score=147.57  Aligned_cols=187  Identities=19%  Similarity=0.211  Sum_probs=130.0

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++++|++.+++.|...+.     .+..++.+||+||+|+|||++|+++|+.+++.                   
T Consensus         9 yRPktFddVIGQe~vv~~L~~aI~-----~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~   83 (702)
T PRK14960          9 YRPRNFNELVGQNHVSRALSSALE-----RGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNE   83 (702)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHH-----cCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhc
Confidence            345789999999999999988765     23336778999999999999999999998652                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           ++.++.++      ......++.+...+.    .+...|++|||+|.|.             ....+.|++.++.
T Consensus        84 g~hpDviEIDAAs------~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS-------------~~A~NALLKtLEE  144 (702)
T PRK14960         84 GRFIDLIEIDAAS------RTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLS-------------THSFNALLKTLEE  144 (702)
T ss_pred             CCCCceEEecccc------cCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcC-------------HHHHHHHHHHHhc
Confidence                 33333321      112344566655442    2345799999999996             3456788888885


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di  411 (478)
                      .  ...+.+|.+|+.+..+++.+++  |+ ..+.|.. ++.++...+++..+++.++..+. .+..++...  +-+.+++
T Consensus       145 P--P~~v~FILaTtd~~kIp~TIlS--RC-q~feFkp-Ls~eEI~k~L~~Il~kEgI~id~eAL~~IA~~S--~GdLRdA  216 (702)
T PRK14960        145 P--PEHVKFLFATTDPQKLPITVIS--RC-LQFTLRP-LAVDEITKHLGAILEKEQIAADQDAIWQIAESA--QGSLRDA  216 (702)
T ss_pred             C--CCCcEEEEEECChHhhhHHHHH--hh-heeeccC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCCHHHH
Confidence            3  4566777788888889999988  88 4666764 67888888888888766554332 255666654  3344555


Q ss_pred             HHHHHHHH
Q psy450          412 YSICSNAW  419 (478)
Q Consensus       412 ~~l~~~a~  419 (478)
                      .+++..+.
T Consensus       217 LnLLDQaI  224 (702)
T PRK14960        217 LSLTDQAI  224 (702)
T ss_pred             HHHHHHHH
Confidence            55544433

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.60  E-value=2.2e-14  Score=143.73  Aligned_cols=180  Identities=18%  Similarity=0.244  Sum_probs=121.2

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhh---hCCC-CCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNR---TSGL-KRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~---~~~~-~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      .|++|+|++.+++.|...+.....   ..+. .++++||+||||+|||++|+++|+.+.+.                   
T Consensus         3 ~f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~   82 (394)
T PRK07940          3 VWDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAG   82 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcC
Confidence            589999999999999999886531   1122 27789999999999999999999987543                   


Q ss_pred             ----EEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC
Q psy450          262 ----FLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV  333 (478)
Q Consensus       262 ----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~  333 (478)
                          +..+....     ..-....++.+++.+..    ....|++|||+|.+.             ....+.|++.++..
T Consensus        83 ~hpD~~~i~~~~-----~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~-------------~~aanaLLk~LEep  144 (394)
T PRK07940         83 THPDVRVVAPEG-----LSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLT-------------ERAANALLKAVEEP  144 (394)
T ss_pred             CCCCEEEecccc-----ccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcC-------------HHHHHHHHHHhhcC
Confidence                11221110     11123456777776643    334699999999996             34558899988853


Q ss_pred             CCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHH
Q psy450          334 HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYS  413 (478)
Q Consensus       334 ~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~  413 (478)
                        ..++++|.+|+.++.+.|.+++  |+ ..++++. |+.++...++..   ..+++. .....++..+ +|..+..+.-
T Consensus       145 --~~~~~fIL~a~~~~~llpTIrS--Rc-~~i~f~~-~~~~~i~~~L~~---~~~~~~-~~a~~la~~s-~G~~~~A~~l  213 (394)
T PRK07940        145 --PPRTVWLLCAPSPEDVLPTIRS--RC-RHVALRT-PSVEAVAEVLVR---RDGVDP-ETARRAARAS-QGHIGRARRL  213 (394)
T ss_pred             --CCCCeEEEEECChHHChHHHHh--hC-eEEECCC-CCHHHHHHHHHH---hcCCCH-HHHHHHHHHc-CCCHHHHHHH
Confidence              3445555566668999999999  98 5888876 677776666652   223332 2244555554 6766654433

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.60  E-value=6.4e-14  Score=141.03  Aligned_cols=233  Identities=23%  Similarity=0.336  Sum_probs=150.3

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhC----------CCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh-hhhc
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTS----------GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN-KYIG  276 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~----------~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~-~~~g  276 (478)
                      .++|++.+++.+...+.....+.          .....++||+||||||||++|+++|+.++.+|+.++++.+.. .|+|
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~~gyvG  151 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVG  151 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhcccCCccc
Confidence            38999999999977764431111          112578999999999999999999999999999999987753 4667


Q ss_pred             chHHH-HHHHHHHh----HhCCCeEEEEcCCccccCCCCCCC---CCchhHHHHHHHHHHhhcCCC----C-------CC
Q psy450          277 QSEEN-IRNVFLKA----RSAAPCVVFFDELDSLAPRRGQED---QSSGVMDRVVSQLLAEMDGVH----T-------SQ  337 (478)
Q Consensus       277 ~~~~~-~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~---~~~~~~~~~~~~ll~~l~~~~----~-------~~  337 (478)
                      ..... +..++..+    ....++||||||+|.+..++.+.+   +.++  ..+++.|+..|++..    +       ..
T Consensus       152 ~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~--~~vQ~~LL~~Leg~~~~v~~~gg~~~~~~  229 (412)
T PRK05342        152 EDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSG--EGVQQALLKILEGTVASVPPQGGRKHPQQ  229 (412)
T ss_pred             chHHHHHHHHHHhccccHHHcCCcEEEEechhhhccccCCCCcCCCccc--HHHHHHHHHHHhcCeEEeCCCCCcCcCCC
Confidence            65443 34444322    234678999999999987632211   1111  347788888887531    1       12


Q ss_pred             CeEEEEEcCCCC----------------------------------------------------CCCccccCCCCCCeEE
Q psy450          338 DVFILGATNRVD----------------------------------------------------LLDPAILRPGRLDKSL  365 (478)
Q Consensus       338 ~v~vI~ttn~~~----------------------------------------------------~ld~~l~~~~Rf~~~i  365 (478)
                      +.++|.|+|-..                                                    -+.|+++  ||++..+
T Consensus       230 ~~~~i~t~nilfi~~Gaf~g~~~~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~dL~~~gf~PEfl--gRld~iv  307 (412)
T PRK05342        230 EFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQVEPEDLIKFGLIPEFI--GRLPVVA  307 (412)
T ss_pred             CeEEeccCCceeeecccccCcHHHHHHHHhhcccCCccccccccccchhHHHHHhcCHHHHHHHhhhHHHh--CCCCeee
Confidence            345555555410                                                    0234444  4999999


Q ss_pred             EeCCCCCHHHHHHHHH----HHHh-------cCCCCC---CCCHHHHHHh-cCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          366 YVGLYEDRISQLGVLK----AVVR-------KFKLSD---DVSLDSLVHH-FPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       366 ~~~~pp~~~~r~~il~----~~~~-------~~~~~~---~~~~~~la~~-~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      .|.. .+.++..+|+.    .+++       ..++.-   +.-+..|++. +..++-.+.|+.+++......+.+.....
T Consensus       308 ~f~~-L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~L~~t~~al~~Ia~~~~~~~~GAR~Lrriie~~l~~~~~~~p~~~  386 (412)
T PRK05342        308 TLEE-LDEEALVRILTEPKNALVKQYQKLFEMDGVELEFTDEALEAIAKKAIERKTGARGLRSILEEILLDVMFELPSRE  386 (412)
T ss_pred             ecCC-CCHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhCCCCCCCCchHHHHHHHHhHHHHHhccccC
Confidence            9974 79999999886    2332       122221   1226667775 33456668899998888888887764321


Q ss_pred             CCCCCCCccccHHHHHhc
Q psy450          431 PQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       431 ~~~~~~~~~it~~d~~~A  448 (478)
                         ......||.+.+..-
T Consensus       387 ---~~~~v~I~~~~v~~~  401 (412)
T PRK05342        387 ---DVEKVVITKEVVEGK  401 (412)
T ss_pred             ---CCceEEECHHHhccc
Confidence               122456777777543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.60  E-value=1.4e-14  Score=159.08  Aligned_cols=169  Identities=20%  Similarity=0.333  Sum_probs=126.8

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhh-
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELL-  271 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~-  271 (478)
                      +-.++.++|.++...++.+++..-      ...+++|+||||||||++++++|..+          +.+++.++...+. 
T Consensus       174 ~~~l~~vigr~~ei~~~i~iL~r~------~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~a  247 (857)
T PRK10865        174 QGKLDPVIGRDEEIRRTIQVLQRR------TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVA  247 (857)
T ss_pred             cCCCCcCCCCHHHHHHHHHHHhcC------CcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhh
Confidence            346789999998766666555332      14569999999999999999999987          6788898888776 


Q ss_pred             -hhhhcchHHHHHHHHHHhHh-CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          272 -NKYIGQSEENIRNVFLKARS-AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       272 -~~~~g~~~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                       .+|.|..+..++.+|..+.. ..++||||||+|.+.+..++.+.     ....+.|...    ...+.+.+|++|+..+
T Consensus       248 g~~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~-----~d~~~~lkp~----l~~g~l~~IgaTt~~e  318 (857)
T PRK10865        248 GAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGA-----MDAGNMLKPA----LARGELHCVGATTLDE  318 (857)
T ss_pred             ccchhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccc-----hhHHHHhcch----hhcCCCeEEEcCCCHH
Confidence             45778899999999988644 56889999999999865432111     1122222222    2456889999999876


Q ss_pred             C-----CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC
Q psy450          350 L-----LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS  390 (478)
Q Consensus       350 ~-----ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~  390 (478)
                      .     +|+++.|  ||+ .|.++. |+.+++..|++.+...+...
T Consensus       319 ~r~~~~~d~al~r--Rf~-~i~v~e-P~~~~~~~iL~~l~~~~e~~  360 (857)
T PRK10865        319 YRQYIEKDAALER--RFQ-KVFVAE-PSVEDTIAILRGLKERYELH  360 (857)
T ss_pred             HHHHhhhcHHHHh--hCC-EEEeCC-CCHHHHHHHHHHHhhhhccC
Confidence            3     7999999  997 577876 68999999998887655443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.59  E-value=3.5e-14  Score=149.04  Aligned_cols=185  Identities=18%  Similarity=0.219  Sum_probs=128.5

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++++|++.+++.|...+..     +..++.+||+||+|+|||++|+.+|+.+++.                   
T Consensus        10 yRP~~f~divGQe~vv~~L~~~l~~-----~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~   84 (647)
T PRK07994         10 WRPQTFAEVVGQEHVLTALANALDL-----GRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQ   84 (647)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc-----CCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHc
Confidence            3456899999999999988877653     2236668999999999999999999998763                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           ++.++...      ......++++.+.+.    .+...|++|||+|.|.             ....+.|++.++.
T Consensus        85 g~~~D~ieidaas------~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls-------------~~a~NALLKtLEE  145 (647)
T PRK07994         85 GRFVDLIEIDAAS------RTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLS-------------RHSFNALLKTLEE  145 (647)
T ss_pred             CCCCCceeecccc------cCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCC-------------HHHHHHHHHHHHc
Confidence                 22232211      112334555554442    2445799999999997             4568899999985


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di  411 (478)
                        ....+.+|.+|+.++.+.+.+++  |+ ..+.|.. ++.++....++..++..++..+ ..+..++... +| +.++.
T Consensus       146 --Pp~~v~FIL~Tt~~~kLl~TI~S--RC-~~~~f~~-Ls~~ei~~~L~~il~~e~i~~e~~aL~~Ia~~s-~G-s~R~A  217 (647)
T PRK07994        146 --PPEHVKFLLATTDPQKLPVTILS--RC-LQFHLKA-LDVEQIRQQLEHILQAEQIPFEPRALQLLARAA-DG-SMRDA  217 (647)
T ss_pred             --CCCCeEEEEecCCccccchHHHh--hh-eEeeCCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CC-CHHHH
Confidence              45567788888889999999999  97 6777775 6788888888877765554433 2244555554 33 34444


Q ss_pred             HHHHHH
Q psy450          412 YSICSN  417 (478)
Q Consensus       412 ~~l~~~  417 (478)
                      .+++..
T Consensus       218 l~lldq  223 (647)
T PRK07994        218 LSLTDQ  223 (647)
T ss_pred             HHHHHH
Confidence            455443

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.59  E-value=5.1e-14  Score=143.64  Aligned_cols=204  Identities=11%  Similarity=0.179  Sum_probs=121.2

Q ss_pred             CCCCCCccccc-CcHHH--HHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh
Q psy450          200 SVPNVSWEDIG-GLSKL--KAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK  273 (478)
Q Consensus       200 ~~~~~~~~~i~-g~~~~--k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~  273 (478)
                      -.|..+|++++ |....  ...+.+....+....+...++++||||+|+|||+|++++++++   +.++++++..++...
T Consensus       104 l~~~~tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~  183 (445)
T PRK12422        104 LDPLMTFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEH  183 (445)
T ss_pred             CCccccccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHH
Confidence            35778899876 43222  2333333322221222334679999999999999999999876   688899998777654


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC---C
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD---L  350 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~---~  350 (478)
                      +.......-...|.... ..+.+|+|||++.+.++..        .++.+..+++.+   ...++.+|+++++.|.   .
T Consensus       184 ~~~~l~~~~~~~f~~~~-~~~dvLiIDDiq~l~~k~~--------~qeelf~l~N~l---~~~~k~IIlts~~~p~~l~~  251 (445)
T PRK12422        184 LVSAIRSGEMQRFRQFY-RNVDALFIEDIEVFSGKGA--------TQEEFFHTFNSL---HTEGKLIVISSTCAPQDLKA  251 (445)
T ss_pred             HHHHHhcchHHHHHHHc-ccCCEEEEcchhhhcCChh--------hHHHHHHHHHHH---HHCCCcEEEecCCCHHHHhh
Confidence            33221111112233322 3457999999999875321        112222333322   1223445554444453   4


Q ss_pred             CCccccCCCCCCeEEEeCC-CCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHHHHHHHHHH
Q psy450          351 LDPAILRPGRLDKSLYVGL-YEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADIYSICSNAW  419 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~-pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di~~l~~~a~  419 (478)
                      +++.+++  ||...+.+++ ||+.++|..|++..++..++.-+. -++.++.+..  -+.+++..++...+
T Consensus       252 l~~rL~S--R~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~~~l~~evl~~la~~~~--~dir~L~g~l~~l~  318 (445)
T PRK12422        252 MEERLIS--RFEWGIAIPLHPLTKEGLRSFLERKAEALSIRIEETALDFLIEALS--SNVKSLLHALTLLA  318 (445)
T ss_pred             hHHHHHh--hhcCCeEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcC--CCHHHHHHHHHHHH
Confidence            6788998  9975555555 579999999998888765543222 2566777662  34456666555554

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.59  E-value=6.3e-14  Score=140.37  Aligned_cols=187  Identities=21%  Similarity=0.254  Sum_probs=127.5

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++++|++.+++.+...+..     +..++.+||+||||+|||++|+++|+.+.+.                   
T Consensus        10 yrP~~~~~iiGq~~~~~~l~~~~~~-----~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~   84 (363)
T PRK14961         10 WRPQYFRDIIGQKHIVTAISNGLSL-----GRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEK   84 (363)
T ss_pred             hCCCchhhccChHHHHHHHHHHHHc-----CCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhc
Confidence            3457899999999999998876642     2236678999999999999999999988642                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           ++.++.+.      ......++.+.+.+..    ....|++|||+|.+.             ....+.|++.++.
T Consensus        85 ~~~~d~~~~~~~~------~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~-------------~~a~naLLk~lEe  145 (363)
T PRK14961         85 GLCLDLIEIDAAS------RTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLS-------------RHSFNALLKTLEE  145 (363)
T ss_pred             CCCCceEEecccc------cCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcC-------------HHHHHHHHHHHhc
Confidence                 22222110      1223345555555432    234699999999986             3456778888875


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di  411 (478)
                        ....+.+|.+|+.++.+.+.+++  |+ ..+.++. ++.++..++++..++..+..-+ ..+..++..+ +| +.+++
T Consensus       146 --~~~~~~fIl~t~~~~~l~~tI~S--Rc-~~~~~~~-l~~~el~~~L~~~~~~~g~~i~~~al~~ia~~s-~G-~~R~a  217 (363)
T PRK14961        146 --PPQHIKFILATTDVEKIPKTILS--RC-LQFKLKI-ISEEKIFNFLKYILIKESIDTDEYALKLIAYHA-HG-SMRDA  217 (363)
T ss_pred             --CCCCeEEEEEcCChHhhhHHHHh--hc-eEEeCCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CC-CHHHH
Confidence              34466777778888889999998  88 5677764 7899999999888876654322 2355566654 33 45555


Q ss_pred             HHHHHHHH
Q psy450          412 YSICSNAW  419 (478)
Q Consensus       412 ~~l~~~a~  419 (478)
                      .+.+..++
T Consensus       218 l~~l~~~~  225 (363)
T PRK14961        218 LNLLEHAI  225 (363)
T ss_pred             HHHHHHHH
Confidence            55555443

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.59  E-value=4.1e-14  Score=146.53  Aligned_cols=197  Identities=14%  Similarity=0.231  Sum_probs=122.2

Q ss_pred             CCCCCcccccCcHHHH---HHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhhh
Q psy450          201 VPNVSWEDIGGLSKLK---AEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELLN  272 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k---~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~~  272 (478)
                      .+..+|++++.-....   ..+..+..    ..+...+.++|||++|+|||+|++++++++     +..++++++.++..
T Consensus       282 ~~~~TFDnFvvG~sN~~A~aaa~avae----~~~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~  357 (617)
T PRK14086        282 NPKYTFDTFVIGASNRFAHAAAVAVAE----APAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTN  357 (617)
T ss_pred             CCCCCHhhhcCCCccHHHHHHHHHHHh----CccccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHH
Confidence            3567888876433322   22233222    222223459999999999999999999986     56889999988877


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC----
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV----  348 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~----  348 (478)
                      .+...........|... -..+++|+|||++.+.++..        .++.+..+++.+   ...++.+|| |+|.+    
T Consensus       358 el~~al~~~~~~~f~~~-y~~~DLLlIDDIq~l~gke~--------tqeeLF~l~N~l---~e~gk~III-TSd~~P~eL  424 (617)
T PRK14086        358 EFINSIRDGKGDSFRRR-YREMDILLVDDIQFLEDKES--------TQEEFFHTFNTL---HNANKQIVL-SSDRPPKQL  424 (617)
T ss_pred             HHHHHHHhccHHHHHHH-hhcCCEEEEehhccccCCHH--------HHHHHHHHHHHH---HhcCCCEEE-ecCCChHhh
Confidence            66543322222233322 22357999999999975421        112222333333   233344444 55553    


Q ss_pred             CCCCccccCCCCCCeEEEeCC-CCCHHHHHHHHHHHHhcCCCC--CCCCHHHHHHhcCCCCCHHHHHHHHHHHH
Q psy450          349 DLLDPAILRPGRLDKSLYVGL-YEDRISQLGVLKAVVRKFKLS--DDVSLDSLVHHFPSQMSGADIYSICSNAW  419 (478)
Q Consensus       349 ~~ld~~l~~~~Rf~~~i~~~~-pp~~~~r~~il~~~~~~~~~~--~~~~~~~la~~~~~~~sg~di~~l~~~a~  419 (478)
                      ..+++.|++  ||...+.+.+ +|+.+.|..||+..++...+.  .++ +..|+.++.  -+.++|..++....
T Consensus       425 ~~l~~rL~S--Rf~~GLvv~I~~PD~EtR~aIL~kka~~r~l~l~~eV-i~yLa~r~~--rnvR~LegaL~rL~  493 (617)
T PRK14086        425 VTLEDRLRN--RFEWGLITDVQPPELETRIAILRKKAVQEQLNAPPEV-LEFIASRIS--RNIRELEGALIRVT  493 (617)
T ss_pred             hhccHHHHh--hhhcCceEEcCCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhcc--CCHHHHHHHHHHHH
Confidence            347888998  9987775555 589999999998887655543  333 777777762  34566666665543

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.59  E-value=4.2e-13  Score=142.47  Aligned_cols=221  Identities=20%  Similarity=0.340  Sum_probs=133.1

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPEL  270 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l  270 (478)
                      ..+.+|++++|++...+.+...+..+      .+.+++|+||||||||++|+++++..          +.+|+.+++..+
T Consensus       148 ~rp~~~~~iiGqs~~~~~l~~~ia~~------~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l  221 (615)
T TIGR02903       148 LRPRAFSEIVGQERAIKALLAKVASP------FPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTL  221 (615)
T ss_pred             cCcCcHHhceeCcHHHHHHHHHHhcC------CCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhc
Confidence            45678999999999988876554321      15679999999999999999998655          357899988654


Q ss_pred             h-------hhhhcchHHH----HHHHHHH----------hHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHh
Q psy450          271 L-------NKYIGQSEEN----IRNVFLK----------ARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAE  329 (478)
Q Consensus       271 ~-------~~~~g~~~~~----~~~~~~~----------a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~  329 (478)
                      .       ....+.....    .+..+..          .......+|||||++.|..             .....++..
T Consensus       222 ~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~-------------~~Q~~Ll~~  288 (615)
T TIGR02903       222 RWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDP-------------LLQNKLLKV  288 (615)
T ss_pred             cCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCH-------------HHHHHHHHH
Confidence            1       1111211110    0111110          0112345999999998863             233444444


Q ss_pred             hcCCC--------------------------CCCCeEEEE-EcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHH
Q psy450          330 MDGVH--------------------------TSQDVFILG-ATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKA  382 (478)
Q Consensus       330 l~~~~--------------------------~~~~v~vI~-ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~  382 (478)
                      ++.-.                          ...++++|+ ||+.++.+++++++  ||. .+.++. .+.++...|++.
T Consensus       289 Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrS--R~~-~i~~~p-ls~edi~~Il~~  364 (615)
T TIGR02903       289 LEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRS--RCA-EVFFEP-LTPEDIALIVLN  364 (615)
T ss_pred             HhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHh--cee-EEEeCC-CCHHHHHHHHHH
Confidence            43210                          112355554 55678889999998  986 456664 688999999999


Q ss_pred             HHhcCCCCCCCC-HHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhch
Q psy450          383 VVRKFKLSDDVS-LDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGAC  449 (478)
Q Consensus       383 ~~~~~~~~~~~~-~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~  449 (478)
                      .+.+.++.-+.+ +..++..+   ..|+...+.+..+...+..+.....  .......||.+|+.+++
T Consensus       365 ~a~~~~v~ls~eal~~L~~ys---~~gRraln~L~~~~~~~~~~~~~~~--~~~~~~~I~~edv~~~l  427 (615)
T TIGR02903       365 AAEKINVHLAAGVEELIARYT---IEGRKAVNILADVYGYALYRAAEAG--KENDKVTITQDDVYEVI  427 (615)
T ss_pred             HHHHcCCCCCHHHHHHHHHCC---CcHHHHHHHHHHHHHHHHHHHHHhc--cCCCCeeECHHHHHHHh
Confidence            887665432222 33343332   2455555555555544443332000  01124579999999993

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.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.59  E-value=4.1e-14  Score=150.72  Aligned_cols=193  Identities=18%  Similarity=0.163  Sum_probs=126.6

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEE-E-Ee---c---hhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFL-A-VK---G---PELLN  272 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~-~-v~---~---~~l~~  272 (478)
                      +.+.+|++|+|++.+++.|+..+..     +.-++.+||+||||||||++|+++|+.+++.-. . ..   |   ..+..
T Consensus        10 yRP~tFddIIGQe~Iv~~LknaI~~-----~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~   84 (944)
T PRK14949         10 WRPATFEQMVGQSHVLHALTNALTQ-----QRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQ   84 (944)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHh-----CCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhc
Confidence            3457899999999999998877643     222666899999999999999999999876411 0 00   0   00000


Q ss_pred             h-------hhc---chHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCC
Q psy450          273 K-------YIG---QSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD  338 (478)
Q Consensus       273 ~-------~~g---~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  338 (478)
                      .       +.+   .....++.+...+.    .+...|++|||+|.|.             ....+.|++.|+.  ...+
T Consensus        85 g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT-------------~eAqNALLKtLEE--PP~~  149 (944)
T PRK14949         85 GRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLS-------------RSSFNALLKTLEE--PPEH  149 (944)
T ss_pred             CCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcC-------------HHHHHHHHHHHhc--cCCC
Confidence            0       000   12233555554442    2345699999999996             4678899999985  3456


Q ss_pred             eEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHHHHHHHH
Q psy450          339 VFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADIYSICSN  417 (478)
Q Consensus       339 v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di~~l~~~  417 (478)
                      +.+|++|+.+..+.+.+++  |+ ..+.|.. .+.++....++..+...++..+. .+..++... +| +.+++.++|..
T Consensus       150 vrFILaTTe~~kLl~TIlS--RC-q~f~fkp-Ls~eEI~~~L~~il~~EgI~~edeAL~lIA~~S-~G-d~R~ALnLLdQ  223 (944)
T PRK14949        150 VKFLLATTDPQKLPVTVLS--RC-LQFNLKS-LTQDEIGTQLNHILTQEQLPFEAEALTLLAKAA-NG-SMRDALSLTDQ  223 (944)
T ss_pred             eEEEEECCCchhchHHHHH--hh-eEEeCCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CC-CHHHHHHHHHH
Confidence            7777788888999999998  88 5566664 67888888887777654443322 245555543 33 34455555544


Q ss_pred             HH
Q psy450          418 AW  419 (478)
Q Consensus       418 a~  419 (478)
                      +.
T Consensus       224 al  225 (944)
T PRK14949        224 AI  225 (944)
T ss_pred             HH
Confidence            33

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.59  E-value=4.6e-14  Score=143.93  Aligned_cols=196  Identities=21%  Similarity=0.323  Sum_probs=128.5

Q ss_pred             CCCCCcccccCcHHHHHH---HHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcc
Q psy450          201 VPNVSWEDIGGLSKLKAE---ILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQ  277 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~---l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~  277 (478)
                      +.+.++++++|+++....   +...+...      ...+++|+||||||||++|+++++.++.+++.+++...       
T Consensus         6 ~RP~~l~d~vGq~~~v~~~~~L~~~i~~~------~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~-------   72 (413)
T PRK13342          6 MRPKTLDEVVGQEHLLGPGKPLRRMIEAG------RLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTS-------   72 (413)
T ss_pred             hCCCCHHHhcCcHHHhCcchHHHHHHHcC------CCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccc-------
Confidence            344679999999998665   66655321      25579999999999999999999999999999887532       


Q ss_pred             hHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcC-C-CCCC
Q psy450          278 SEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN-R-VDLL  351 (478)
Q Consensus       278 ~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn-~-~~~l  351 (478)
                      ....++.+++.+.    .....||||||+|.+..             ...+.|+..++.    ..+++|++|+ . ...+
T Consensus        73 ~~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~~-------------~~q~~LL~~le~----~~iilI~att~n~~~~l  135 (413)
T PRK13342         73 GVKDLREVIEEARQRRSAGRRTILFIDEIHRFNK-------------AQQDALLPHVED----GTITLIGATTENPSFEV  135 (413)
T ss_pred             cHHHHHHHHHHHHHhhhcCCceEEEEechhhhCH-------------HHHHHHHHHhhc----CcEEEEEeCCCChhhhc
Confidence            2234455555542    23567999999999862             334556666653    4566666553 3 3468


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcC-----CCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHH
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKF-----KLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRI  426 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~-----~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~  426 (478)
                      ++++++  |+ ..+.++. ++.++...+++..+...     .++.+ .+..++..+ .| ..+.+.+++..++..     
T Consensus       136 ~~aL~S--R~-~~~~~~~-ls~e~i~~lL~~~l~~~~~~~i~i~~~-al~~l~~~s-~G-d~R~aln~Le~~~~~-----  203 (413)
T PRK13342        136 NPALLS--RA-QVFELKP-LSEEDIEQLLKRALEDKERGLVELDDE-ALDALARLA-NG-DARRALNLLELAALG-----  203 (413)
T ss_pred             cHHHhc--cc-eeeEeCC-CCHHHHHHHHHHHHHHhhcCCCCCCHH-HHHHHHHhC-CC-CHHHHHHHHHHHHHc-----
Confidence            899999  98 5677775 68888888888776542     22211 244555544 22 333344444443321     


Q ss_pred             HhcCCCCCCCCccccHHHHHhc
Q psy450          427 ITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       427 ~~~~~~~~~~~~~it~~d~~~A  448 (478)
                                ...||.+++.++
T Consensus       204 ----------~~~It~~~v~~~  215 (413)
T PRK13342        204 ----------VDSITLELLEEA  215 (413)
T ss_pred             ----------cCCCCHHHHHHH
Confidence                      124777777777

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.58  E-value=2.8e-14  Score=147.81  Aligned_cols=187  Identities=16%  Similarity=0.186  Sum_probs=130.1

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++++|++.+++.|...+..     +..++.+||+||+|||||++|+++|+.+++.                   
T Consensus        10 yRP~~f~divGq~~v~~~L~~~~~~-----~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~   84 (509)
T PRK14958         10 WRPRCFQEVIGQAPVVRALSNALDQ-----QYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDE   84 (509)
T ss_pred             HCCCCHHHhcCCHHHHHHHHHHHHh-----CCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhc
Confidence            4567899999999999999887753     2236678999999999999999999998653                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           +++++.+.      ......++.+.+.+.    .+...|++|||+|.+.             ....+.|++.++.
T Consensus        85 g~~~d~~eidaas------~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls-------------~~a~naLLk~LEe  145 (509)
T PRK14958         85 GRFPDLFEVDAAS------RTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLS-------------GHSFNALLKTLEE  145 (509)
T ss_pred             CCCceEEEEcccc------cCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcC-------------HHHHHHHHHHHhc
Confidence                 34444321      123334566655443    2345699999999997             3457889999985


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di  411 (478)
                      .  ...+.+|.+|+.+..+.+.+++  |+ ..+.+.. .+.++....++..+++.++..+ ..+..++...  +-+.+++
T Consensus       146 p--p~~~~fIlattd~~kl~~tI~S--Rc-~~~~f~~-l~~~~i~~~l~~il~~egi~~~~~al~~ia~~s--~GslR~a  217 (509)
T PRK14958        146 P--PSHVKFILATTDHHKLPVTVLS--RC-LQFHLAQ-LPPLQIAAHCQHLLKEENVEFENAALDLLARAA--NGSVRDA  217 (509)
T ss_pred             c--CCCeEEEEEECChHhchHHHHH--Hh-hhhhcCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCcHHHH
Confidence            3  4567777788888999989998  87 4556664 5677777778777776655433 2255566654  3345566


Q ss_pred             HHHHHHHH
Q psy450          412 YSICSNAW  419 (478)
Q Consensus       412 ~~l~~~a~  419 (478)
                      .+++..+.
T Consensus       218 l~lLdq~i  225 (509)
T PRK14958        218 LSLLDQSI  225 (509)
T ss_pred             HHHHHHHH
Confidence            66655443

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.58  E-value=7.2e-14  Score=139.21  Aligned_cols=208  Identities=22%  Similarity=0.258  Sum_probs=132.3

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC-----CcEEEEechhhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR-----MNFLAVKGPELLNK  273 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~-----~~~~~v~~~~l~~~  273 (478)
                      ..+.+.+|++++|++.+++.|...+...      ...+++|+||||||||++|+++++++.     .+++++++.++...
T Consensus         7 ~ky~P~~~~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~   80 (337)
T PRK12402          7 EKYRPALLEDILGQDEVVERLSRAVDSP------NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQ   80 (337)
T ss_pred             HhhCCCcHHHhcCCHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhc
Confidence            3455677999999999999988876532      133699999999999999999999884     34678887765322


Q ss_pred             h---h----------cc-------hHHHHHHHHHHhHh-----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHH
Q psy450          274 Y---I----------GQ-------SEENIRNVFLKARS-----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLA  328 (478)
Q Consensus       274 ~---~----------g~-------~~~~~~~~~~~a~~-----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~  328 (478)
                      .   .          +.       ....++.+......     ..+.+|+|||+|.+..             ...+.|..
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~-------------~~~~~L~~  147 (337)
T PRK12402         81 GKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALRE-------------DAQQALRR  147 (337)
T ss_pred             chhhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCH-------------HHHHHHHH
Confidence            1   0          00       11223333322222     2346999999998852             23344555


Q ss_pred             hhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCC-CCCHHHHHHhcCCCCC
Q psy450          329 EMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSD-DVSLDSLVHHFPSQMS  407 (478)
Q Consensus       329 ~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~-~~~~~~la~~~~~~~s  407 (478)
                      .++...  ....+|.+++.+..+.+.+++  |+ ..+.+.. ++.++...+++..+++.++.- +..+..++..+     
T Consensus       148 ~le~~~--~~~~~Il~~~~~~~~~~~L~s--r~-~~v~~~~-~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~~-----  216 (337)
T PRK12402        148 IMEQYS--RTCRFIIATRQPSKLIPPIRS--RC-LPLFFRA-PTDDELVDVLESIAEAEGVDYDDDGLELIAYYA-----  216 (337)
T ss_pred             HHHhcc--CCCeEEEEeCChhhCchhhcC--Cc-eEEEecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-----
Confidence            555432  234455566666777778887  76 4567764 688899999988877665442 22355666654     


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          408 GADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       408 g~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      ++|++.++......+.            ....||.+|+.++
T Consensus       217 ~gdlr~l~~~l~~~~~------------~~~~It~~~v~~~  245 (337)
T PRK12402        217 GGDLRKAILTLQTAAL------------AAGEITMEAAYEA  245 (337)
T ss_pred             CCCHHHHHHHHHHHHH------------cCCCCCHHHHHHH
Confidence            3466666554443221            1225888888877

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

Probab=99.57  E-value=8.1e-14  Score=138.29  Aligned_cols=237  Identities=22%  Similarity=0.261  Sum_probs=165.8

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-----EEEEechhhhhhh-------
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-----FLAVKGPELLNKY-------  274 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-----~~~v~~~~l~~~~-------  274 (478)
                      +.+.+.+...+++...+.....  |..|.+++++||||||||.+++.+++++...     ++++||..+.+.+       
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            4488999999999988766653  3347779999999999999999999988443     8999985543221       


Q ss_pred             --------hcchHHH-HHHHHHHhHh-CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEE
Q psy450          275 --------IGQSEEN-IRNVFLKARS-AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGA  344 (478)
Q Consensus       275 --------~g~~~~~-~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~t  344 (478)
                              .|.+... ...+++.... ....||++||+|.|..+.+          .+++.|+...+..  ..++.+|+.
T Consensus        95 ~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~----------~~LY~L~r~~~~~--~~~v~vi~i  162 (366)
T COG1474          95 NKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDG----------EVLYSLLRAPGEN--KVKVSIIAV  162 (366)
T ss_pred             HHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccc----------hHHHHHHhhcccc--ceeEEEEEE
Confidence                    1222222 2233333322 4457999999999986531          5788888776644  567899999


Q ss_pred             cCCCC---CCCccccCCCCCC-eEEEeCCCCCHHHHHHHHHHHHhcCCCCC--CCCHHHHHHhcCCCCCHHHH---HHHH
Q psy450          345 TNRVD---LLDPAILRPGRLD-KSLYVGLYEDRISQLGVLKAVVRKFKLSD--DVSLDSLVHHFPSQMSGADI---YSIC  415 (478)
Q Consensus       345 tn~~~---~ld~~l~~~~Rf~-~~i~~~~pp~~~~r~~il~~~~~~~~~~~--~~~~~~la~~~~~~~sg~di---~~l~  415 (478)
                      +|..+   .+++.+.+  ++. ..|.|++ .+.+|...|++...+..-...  +.+.-+++.... +..++|.   -.+|
T Consensus       163 ~n~~~~~~~ld~rv~s--~l~~~~I~F~p-Y~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~-a~~~GDAR~aidil  238 (366)
T COG1474         163 SNDDKFLDYLDPRVKS--SLGPSEIVFPP-YTAEELYDILRERVEEGFSAGVIDDDVLKLIAALV-AAESGDARKAIDIL  238 (366)
T ss_pred             eccHHHHHHhhhhhhh--ccCcceeeeCC-CCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHH-HHcCccHHHHHHHH
Confidence            99874   58888887  555 4578875 799999999988876421111  112223333221 2222244   4778


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchhccCCCcccccccccccccccccccccc
Q psy450          416 SNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLSVAPELLV  477 (478)
Q Consensus       416 ~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~~~~~~~~~  477 (478)
                      +.|+..|.++.          ...++.+|+.+|      ...+.+.+..+.+..++.|++++
T Consensus       239 r~A~eiAe~~~----------~~~v~~~~v~~a------~~~~~~~~~~~~~~~L~~~~ki~  284 (366)
T COG1474         239 RRAGEIAEREG----------SRKVSEDHVREA------QEEIERDVLEEVLKTLPLHQKIV  284 (366)
T ss_pred             HHHHHHHHhhC----------CCCcCHHHHHHH------HHHhhHHHHHHHHHcCCHhHHHH
Confidence            88888888775          568999999999      88888888888888888888764

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.57  E-value=5.6e-14  Score=155.01  Aligned_cols=172  Identities=20%  Similarity=0.333  Sum_probs=127.8

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhh
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELL  271 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~  271 (478)
                      .+-.++.++|.++...++.+.+...      ...+++|+||||||||+++++++..+          +.+++.++...+.
T Consensus       168 ~~~~~~~~igr~~ei~~~~~~l~r~------~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~  241 (852)
T TIGR03346       168 REGKLDPVIGRDEEIRRTIQVLSRR------TKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALI  241 (852)
T ss_pred             hCCCCCcCCCcHHHHHHHHHHHhcC------CCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHh
Confidence            3446888999999877666655332      14568999999999999999999886          6778888887775


Q ss_pred             --hhhhcchHHHHHHHHHHhHh-CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          272 --NKYIGQSEENIRNVFLKARS-AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       272 --~~~~g~~~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                        ..|.|..+..+..++..+.. ..++||||||+|.+.+.+...+  +   ....+.|...    ...+.+.+|++|+..
T Consensus       242 a~~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~--~---~d~~~~Lk~~----l~~g~i~~IgaTt~~  312 (852)
T TIGR03346       242 AGAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEG--A---MDAGNMLKPA----LARGELHCIGATTLD  312 (852)
T ss_pred             hcchhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcc--h---hHHHHHhchh----hhcCceEEEEeCcHH
Confidence              45788899999999998865 4589999999999986432211  1   1122222222    245678999999977


Q ss_pred             C-----CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC
Q psy450          349 D-----LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD  392 (478)
Q Consensus       349 ~-----~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~  392 (478)
                      +     ..|+++.|  ||. .+.++. |+.+++..|++.+...+.....
T Consensus       313 e~r~~~~~d~al~r--Rf~-~i~v~~-p~~~~~~~iL~~~~~~~e~~~~  357 (852)
T TIGR03346       313 EYRKYIEKDAALER--RFQ-PVFVDE-PTVEDTISILRGLKERYEVHHG  357 (852)
T ss_pred             HHHHHhhcCHHHHh--cCC-EEEeCC-CCHHHHHHHHHHHHHHhccccC
Confidence            4     47999999  996 478886 6899999999988776655443

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.

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

Probab=99.57  E-value=4e-13  Score=123.22  Aligned_cols=188  Identities=20%  Similarity=0.317  Sum_probs=132.2

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhc
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIG  276 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g  276 (478)
                      ....+.+++++|++.+|+.|.+.......  |.+..++||||++|||||++++++.+++   |..++.+...++..    
T Consensus        20 ~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~--G~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~----   93 (249)
T PF05673_consen   20 HPDPIRLDDLIGIERQKEALIENTEQFLQ--GLPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGD----   93 (249)
T ss_pred             CCCCCCHHHhcCHHHHHHHHHHHHHHHHc--CCCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhcc----
Confidence            34577899999999999999988876653  5568899999999999999999999877   67888888766532    


Q ss_pred             chHHHHHHHHHHhHh-CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC--CCCeEEEEEcCCCCCCCc
Q psy450          277 QSEENIRNVFLKARS-AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT--SQDVFILGATNRVDLLDP  353 (478)
Q Consensus       277 ~~~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~v~vI~ttn~~~~ld~  353 (478)
                           +..+++..+. ..+-|||+||+.  +..          .+.-...|...++|.-.  ..++++.+|+|+.+.+++
T Consensus        94 -----l~~l~~~l~~~~~kFIlf~DDLs--Fe~----------~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E  156 (249)
T PF05673_consen   94 -----LPELLDLLRDRPYKFILFCDDLS--FEE----------GDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVPE  156 (249)
T ss_pred             -----HHHHHHHHhcCCCCEEEEecCCC--CCC----------CcHHHHHHHHHhcCccccCCCcEEEEEecchhhccch
Confidence                 3334444432 235699999853  211          12344666667776433  458999999998765543


Q ss_pred             cccC---------------------CCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhc---CCCCCH
Q psy450          354 AILR---------------------PGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHF---PSQMSG  408 (478)
Q Consensus       354 ~l~~---------------------~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~---~~~~sg  408 (478)
                      ....                     ..||...+.|.. |+.++.++|++.+++..++.-+ ..+..-|.++   ..|.||
T Consensus       157 ~~~d~~~~~~~eih~~d~~eEklSLsDRFGL~l~F~~-~~q~~YL~IV~~~~~~~g~~~~~e~l~~~Al~wa~~rg~RSG  235 (249)
T PF05673_consen  157 SFSDREDIQDDEIHPSDTIEEKLSLSDRFGLWLSFYP-PDQEEYLAIVRHYAERYGLELDEEELRQEALQWALRRGGRSG  235 (249)
T ss_pred             hhhhccCCCccccCcchHHHHHHhHHHhCCcEEEecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHcCCCCH
Confidence            2211                     239999999985 7999999999999987776654 2233322221   245677


Q ss_pred             HHH
Q psy450          409 ADI  411 (478)
Q Consensus       409 ~di  411 (478)
                      +--
T Consensus       236 RtA  238 (249)
T PF05673_consen  236 RTA  238 (249)
T ss_pred             HHH
Confidence            543

>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=99.56  E-value=3.7e-14  Score=131.68  Aligned_cols=198  Identities=19%  Similarity=0.279  Sum_probs=120.1

Q ss_pred             CCCCCccccc-C--cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhhh
Q psy450          201 VPNVSWEDIG-G--LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELLN  272 (478)
Q Consensus       201 ~~~~~~~~i~-g--~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~~  272 (478)
                      .|+.+|++++ |  .+.+......+..    .++.....++||||+|+|||+|++++++++     +..++++++.++..
T Consensus         2 n~~~tFdnfv~g~~N~~a~~~~~~ia~----~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~   77 (219)
T PF00308_consen    2 NPKYTFDNFVVGESNELAYAAAKAIAE----NPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIR   77 (219)
T ss_dssp             -TT-SCCCS--TTTTHHHHHHHHHHHH----STTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHH
T ss_pred             CCCCccccCCcCCcHHHHHHHHHHHHh----cCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHH
Confidence            4678899885 4  2333333333322    233334569999999999999999999875     56799999888876


Q ss_pred             hhhcchHH-HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC-
Q psy450          273 KYIGQSEE-NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL-  350 (478)
Q Consensus       273 ~~~g~~~~-~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~-  350 (478)
                      .+...... .+..+....+  ...+|+|||++.+.++           ..+...+...++.....++.+|+++...|.. 
T Consensus        78 ~~~~~~~~~~~~~~~~~~~--~~DlL~iDDi~~l~~~-----------~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l  144 (219)
T PF00308_consen   78 EFADALRDGEIEEFKDRLR--SADLLIIDDIQFLAGK-----------QRTQEELFHLFNRLIESGKQLILTSDRPPSEL  144 (219)
T ss_dssp             HHHHHHHTTSHHHHHHHHC--TSSEEEEETGGGGTTH-----------HHHHHHHHHHHHHHHHTTSEEEEEESS-TTTT
T ss_pred             HHHHHHHcccchhhhhhhh--cCCEEEEecchhhcCc-----------hHHHHHHHHHHHHHHhhCCeEEEEeCCCCccc
Confidence            55432222 1223333333  3469999999999742           2334445555554445566677776677654 


Q ss_pred             --CCccccCCCCCCeEEEeCC-CCCHHHHHHHHHHHHhcCCCCCCCC-HHHHHHhcCCCCCHHHHHHHHHHHH
Q psy450          351 --LDPAILRPGRLDKSLYVGL-YEDRISQLGVLKAVVRKFKLSDDVS-LDSLVHHFPSQMSGADIYSICSNAW  419 (478)
Q Consensus       351 --ld~~l~~~~Rf~~~i~~~~-pp~~~~r~~il~~~~~~~~~~~~~~-~~~la~~~~~~~sg~di~~l~~~a~  419 (478)
                        +++.+.+  ||...+.+.+ ||+.+.|..|++..+...++.-+.+ +..|+.++  .-+.++|..++..-.
T Consensus       145 ~~~~~~L~S--Rl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~l~~~v~~~l~~~~--~~~~r~L~~~l~~l~  213 (219)
T PF00308_consen  145 SGLLPDLRS--RLSWGLVVELQPPDDEDRRRILQKKAKERGIELPEEVIEYLARRF--RRDVRELEGALNRLD  213 (219)
T ss_dssp             TTS-HHHHH--HHHCSEEEEE----HHHHHHHHHHHHHHTT--S-HHHHHHHHHHT--TSSHHHHHHHHHHHH
T ss_pred             cccChhhhh--hHhhcchhhcCCCCHHHHHHHHHHHHHHhCCCCcHHHHHHHHHhh--cCCHHHHHHHHHHHH
Confidence              5677888  8887655555 5899999999998887665443222 66677775  345667766666544

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.

>KOG0989|consensus

Probab=99.56  E-value=2e-14  Score=133.73  Aligned_cols=184  Identities=19%  Similarity=0.245  Sum_probs=122.6

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC------cEEEEechhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM------NFLAVKGPELLN  272 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~------~~~~v~~~~l~~  272 (478)
                      ..+.+.+++++.|++.+.+.|...+.. ..     ..++|||||||||||+.|+++|.++..      .+...+.++-.+
T Consensus        28 eKYrPkt~de~~gQe~vV~~L~~a~~~-~~-----lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderG  101 (346)
T KOG0989|consen   28 EKYRPKTFDELAGQEHVVQVLKNALLR-RI-----LPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERG  101 (346)
T ss_pred             HHhCCCcHHhhcchHHHHHHHHHHHhh-cC-----CceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccc
Confidence            445667899999999999999887765 11     456999999999999999999999865      233333333322


Q ss_pred             hhhcchHHHHHHHHHHhHh---------CCC-eEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEE
Q psy450          273 KYIGQSEENIRNVFLKARS---------AAP-CVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFIL  342 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~---------~~p-~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI  342 (478)
                      ..+.  ...+ .-|.....         ..| .|++|||.|.+.             ...+..|...|+..  ...+.+|
T Consensus       102 isvv--r~Ki-k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmt-------------sdaq~aLrr~mE~~--s~~trFi  163 (346)
T KOG0989|consen  102 ISVV--REKI-KNFAKLTVLLKRSDGYPCPPFKIIILDECDSMT-------------SDAQAALRRTMEDF--SRTTRFI  163 (346)
T ss_pred             ccch--hhhh-cCHHHHhhccccccCCCCCcceEEEEechhhhh-------------HHHHHHHHHHHhcc--ccceEEE
Confidence            2111  1111 11222211         122 699999999997             46778899999863  4567788


Q ss_pred             EEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC-HHHHHHhcCCCCCHHHHHHHH
Q psy450          343 GATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS-LDSLVHHFPSQMSGADIYSIC  415 (478)
Q Consensus       343 ~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~-~~~la~~~~~~~sg~di~~l~  415 (478)
                      ..||.++.+.+.+.+  |+.+..+-+  ...+.....|+....+.++.-+.+ +..+++..     ++|++...
T Consensus       164 LIcnylsrii~pi~S--RC~KfrFk~--L~d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S-----~GdLR~Ai  228 (346)
T KOG0989|consen  164 LICNYLSRIIRPLVS--RCQKFRFKK--LKDEDIVDRLEKIASKEGVDIDDDALKLIAKIS-----DGDLRRAI  228 (346)
T ss_pred             EEcCChhhCChHHHh--hHHHhcCCC--cchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHc-----CCcHHHHH
Confidence            889999999999999  986544443  355566667777776655543322 55555543     44665543

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.56  E-value=5.5e-14  Score=154.65  Aligned_cols=162  Identities=23%  Similarity=0.344  Sum_probs=124.6

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhh--
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELL--  271 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~--  271 (478)
                      -.++.++|.++...++.+.+...      ..++++|+||||||||++++.+|..+          +.+++.++...+.  
T Consensus       176 ~~~~~~igr~~ei~~~~~~L~r~------~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag  249 (821)
T CHL00095        176 GNLDPVIGREKEIERVIQILGRR------TKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAG  249 (821)
T ss_pred             CCCCCCCCcHHHHHHHHHHHccc------ccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhcc
Confidence            34788999999999988876533      25679999999999999999999986          3689999988876  


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC--
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD--  349 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~--  349 (478)
                      .+|.|+.+..++.+++.+....++||||||+|.+.+.++..+..     .+.+.|...+    ..+.+.+|++|+..+  
T Consensus       250 ~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~-----~~a~lLkp~l----~rg~l~~IgaTt~~ey~  320 (821)
T CHL00095        250 TKYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAI-----DAANILKPAL----ARGELQCIGATTLDEYR  320 (821)
T ss_pred             CCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcc-----cHHHHhHHHH----hCCCcEEEEeCCHHHHH
Confidence            46789999999999999988888999999999998754322211     1222222222    356788999998764  


Q ss_pred             ---CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          350 ---LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       350 ---~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                         ..|+++.+  ||. .+.++. |+.++...|++...
T Consensus       321 ~~ie~D~aL~r--Rf~-~I~v~e-p~~~e~~aILr~l~  354 (821)
T CHL00095        321 KHIEKDPALER--RFQ-PVYVGE-PSVEETIEILFGLR  354 (821)
T ss_pred             HHHhcCHHHHh--cce-EEecCC-CCHHHHHHHHHHHH
Confidence               36899999  996 467776 68888888887654

>PLN03025 replication factor C subunit; Provisional

Probab=99.56  E-value=1.5e-13  Score=135.57  Aligned_cols=184  Identities=22%  Similarity=0.199  Sum_probs=121.8

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC-----CcEEEEechhhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR-----MNFLAVKGPELLNK  273 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~-----~~~~~v~~~~l~~~  273 (478)
                      ..+.+.++++++|++++++.|+..+...      ...++||+||||||||++|+++|+++.     ..++.++.++..+ 
T Consensus         5 ~kyrP~~l~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~-   77 (319)
T PLN03025          5 EKYRPTKLDDIVGNEDAVSRLQVIARDG------NMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRG-   77 (319)
T ss_pred             hhcCCCCHHHhcCcHHHHHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeeccccccc-
Confidence            3456778999999999999888765421      134699999999999999999999872     2355666544321 


Q ss_pred             hhcchHHHHHHHHHHhH-------hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcC
Q psy450          274 YIGQSEENIRNVFLKAR-------SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN  346 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~-------~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn  346 (478)
                           ...++.......       ...+.|++|||+|.+..             ...+.|+..++...  ....+|.++|
T Consensus        78 -----~~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt~-------------~aq~aL~~~lE~~~--~~t~~il~~n  137 (319)
T PLN03025         78 -----IDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTS-------------GAQQALRRTMEIYS--NTTRFALACN  137 (319)
T ss_pred             -----HHHHHHHHHHHHhccccCCCCCeEEEEEechhhcCH-------------HHHHHHHHHHhccc--CCceEEEEeC
Confidence                 112333322211       12357999999999963             23455666666432  3345667788


Q ss_pred             CCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCC-CCCHHHHHHhcCCCCCHHHHHHHHHHH
Q psy450          347 RVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSD-DVSLDSLVHHFPSQMSGADIYSICSNA  418 (478)
Q Consensus       347 ~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~-~~~~~~la~~~~~~~sg~di~~l~~~a  418 (478)
                      .++.+.+++++  |+ ..+.++. ++.++...+++..+++.++.- +..+..++..+     ++|++.+++..
T Consensus       138 ~~~~i~~~L~S--Rc-~~i~f~~-l~~~~l~~~L~~i~~~egi~i~~~~l~~i~~~~-----~gDlR~aln~L  201 (319)
T PLN03025        138 TSSKIIEPIQS--RC-AIVRFSR-LSDQEILGRLMKVVEAEKVPYVPEGLEAIIFTA-----DGDMRQALNNL  201 (319)
T ss_pred             CccccchhHHH--hh-hcccCCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-----CCCHHHHHHHH
Confidence            88888899998  87 4677775 678888888888876655432 22366666654     24665555443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.56  E-value=8.2e-14  Score=142.23  Aligned_cols=187  Identities=18%  Similarity=0.215  Sum_probs=132.4

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC--------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM--------------------  260 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~--------------------  260 (478)
                      +.+.+|++++|++.+++.|...+.     .+..++++||+||+|+|||++|+.+|+.+++                    
T Consensus         7 yRP~~f~dliGQe~vv~~L~~a~~-----~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~   81 (491)
T PRK14964          7 YRPSSFKDLVGQDVLVRILRNAFT-----LNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKN   81 (491)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHH-----cCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhc
Confidence            445789999999999998886654     2333778999999999999999999987633                    


Q ss_pred             ----cEEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          261 ----NFLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       261 ----~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                          .++.++.++      ......++.+.+.+..    ....|++|||+|.+.             ....+.|++.++.
T Consensus        82 ~~~~Dv~eidaas------~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls-------------~~A~NaLLK~LEe  142 (491)
T PRK14964         82 SNHPDVIEIDAAS------NTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLS-------------NSAFNALLKTLEE  142 (491)
T ss_pred             cCCCCEEEEeccc------CCCHHHHHHHHHHHHhccccCCceEEEEeChHhCC-------------HHHHHHHHHHHhC
Confidence                234454432      1234456666666532    345699999999986             3467889999985


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di  411 (478)
                        ....+.+|.+|+.+..+.+.+++  |+ ..+.+.. ++.++...+++..+++.++.-+ ..+..++..+  +-+.+++
T Consensus       143 --Pp~~v~fIlatte~~Kl~~tI~S--Rc-~~~~f~~-l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s--~GslR~a  214 (491)
T PRK14964        143 --PAPHVKFILATTEVKKIPVTIIS--RC-QRFDLQK-IPTDKLVEHLVDIAKKENIEHDEESLKLIAENS--SGSMRNA  214 (491)
T ss_pred             --CCCCeEEEEEeCChHHHHHHHHH--hh-eeeeccc-ccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCCHHHH
Confidence              34567778788888889999998  88 4567764 6788888888888776654432 2255666665  3355566


Q ss_pred             HHHHHHHH
Q psy450          412 YSICSNAW  419 (478)
Q Consensus       412 ~~l~~~a~  419 (478)
                      .+.+..+.
T Consensus       215 lslLdqli  222 (491)
T PRK14964        215 LFLLEQAA  222 (491)
T ss_pred             HHHHHHHH
Confidence            55555544

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.56  E-value=2e-13  Score=134.82  Aligned_cols=160  Identities=20%  Similarity=0.232  Sum_probs=111.0

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcc
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQ  277 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~  277 (478)
                      ...+.+.++++++|++.+++.+...+.     .+..++.+||+||||+|||++++++++.++.+++.+++.+ . . ...
T Consensus        12 ~~kyrP~~~~~~~~~~~~~~~l~~~~~-----~~~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~-~-~-~~~   83 (316)
T PHA02544         12 EQKYRPSTIDECILPAADKETFKSIVK-----KGRIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD-C-R-IDF   83 (316)
T ss_pred             eeccCCCcHHHhcCcHHHHHHHHHHHh-----cCCCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc-c-c-HHH
Confidence            345667889999999999999888765     2333666777999999999999999999999999998865 1 1 111


Q ss_pred             hHHHHHHHHHHhH-hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCcccc
Q psy450          278 SEENIRNVFLKAR-SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAIL  356 (478)
Q Consensus       278 ~~~~~~~~~~~a~-~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~  356 (478)
                      ....+........ ...+.+|+|||+|.+...            .....+...++..  ..++.+|++||.+..+.++++
T Consensus        84 i~~~l~~~~~~~~~~~~~~vliiDe~d~l~~~------------~~~~~L~~~le~~--~~~~~~Ilt~n~~~~l~~~l~  149 (316)
T PHA02544         84 VRNRLTRFASTVSLTGGGKVIIIDEFDRLGLA------------DAQRHLRSFMEAY--SKNCSFIITANNKNGIIEPLR  149 (316)
T ss_pred             HHHHHHHHHHhhcccCCCeEEEEECcccccCH------------HHHHHHHHHHHhc--CCCceEEEEcCChhhchHHHH
Confidence            1111222211111 135689999999988321            1223333445532  345678889999999999999


Q ss_pred             CCCCCCeEEEeCCCCCHHHHHHHHHHH
Q psy450          357 RPGRLDKSLYVGLYEDRISQLGVLKAV  383 (478)
Q Consensus       357 ~~~Rf~~~i~~~~pp~~~~r~~il~~~  383 (478)
                      +  ||. .+.++. |+.+++..+++.+
T Consensus       150 s--R~~-~i~~~~-p~~~~~~~il~~~  172 (316)
T PHA02544        150 S--RCR-VIDFGV-PTKEEQIEMMKQM  172 (316)
T ss_pred             h--hce-EEEeCC-CCHHHHHHHHHHH
Confidence            9  985 677776 6788887776654

>PRK06893 DNA replication initiation factor; Validated

Probab=99.55  E-value=3.3e-13  Score=126.48  Aligned_cols=211  Identities=12%  Similarity=0.130  Sum_probs=121.0

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY  274 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~  274 (478)
                      ....+..+|+++++.++.. .+........   ......++|||||||||||+++++|+++   +....+++......  
T Consensus         7 ~~~~~~~~fd~f~~~~~~~-~~~~~~~~~~---~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~--   80 (229)
T PRK06893          7 IHQIDDETLDNFYADNNLL-LLDSLRKNFI---DLQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQY--   80 (229)
T ss_pred             CCCCCcccccccccCChHH-HHHHHHHHhh---ccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhh--
Confidence            3445678899988765432 1222211111   1123458999999999999999999886   44556666532211  


Q ss_pred             hcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCC-eEEEEEcCCCCCCC-
Q psy450          275 IGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD-VFILGATNRVDLLD-  352 (478)
Q Consensus       275 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~-v~vI~ttn~~~~ld-  352 (478)
                            ....+++...  +..+|+|||++.+.+..       .+ ...+..+++.+   ...++ ++|++++..|..++ 
T Consensus        81 ------~~~~~~~~~~--~~dlLilDDi~~~~~~~-------~~-~~~l~~l~n~~---~~~~~~illits~~~p~~l~~  141 (229)
T PRK06893         81 ------FSPAVLENLE--QQDLVCLDDLQAVIGNE-------EW-ELAIFDLFNRI---KEQGKTLLLISADCSPHALSI  141 (229)
T ss_pred             ------hhHHHHhhcc--cCCEEEEeChhhhcCCh-------HH-HHHHHHHHHHH---HHcCCcEEEEeCCCChHHccc
Confidence                  1112333333  34699999999987432       11 22333333333   23333 34455555565544 


Q ss_pred             --ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc--CCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHh
Q psy450          353 --PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK--FKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIIT  428 (478)
Q Consensus       353 --~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~--~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~  428 (478)
                        +.+++..+++..+.++. |+.+++..|++..+..  +.+++++ +..|+.++  +-+.+.+..++......+..    
T Consensus       142 ~~~~L~sRl~~g~~~~l~~-pd~e~~~~iL~~~a~~~~l~l~~~v-~~~L~~~~--~~d~r~l~~~l~~l~~~~~~----  213 (229)
T PRK06893        142 KLPDLASRLTWGEIYQLND-LTDEQKIIVLQRNAYQRGIELSDEV-ANFLLKRL--DRDMHTLFDALDLLDKASLQ----  213 (229)
T ss_pred             cchhHHHHHhcCCeeeCCC-CCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHhc--cCCHHHHHHHHHHHHHHHHh----
Confidence              78888333345666664 7999999999877654  4444443 77778776  22444555555543221111    


Q ss_pred             cCCCCCCCCccccHHHHHhc
Q psy450          429 SAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       429 ~~~~~~~~~~~it~~d~~~A  448 (478)
                             ....||...++++
T Consensus       214 -------~~~~it~~~v~~~  226 (229)
T PRK06893        214 -------AQRKLTIPFVKEI  226 (229)
T ss_pred             -------cCCCCCHHHHHHH
Confidence                   1336888888776

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.55  E-value=2.4e-13  Score=127.91  Aligned_cols=206  Identities=16%  Similarity=0.129  Sum_probs=119.8

Q ss_pred             CCCCCCccccc-C-cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh
Q psy450          200 SVPNVSWEDIG-G-LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY  274 (478)
Q Consensus       200 ~~~~~~~~~i~-g-~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~  274 (478)
                      -.+..+|++++ | ...+...+.......      ...+++|+|||||||||+++++++.+   +..+.+++....... 
T Consensus        15 ~~~~~~fd~f~~~~n~~a~~~l~~~~~~~------~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~~-   87 (235)
T PRK08084         15 LPDDETFASFYPGDNDSLLAALQNALRQE------HSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAWF-   87 (235)
T ss_pred             CCCcCCccccccCccHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhhh-
Confidence            34566788876 3 344444444433211      13579999999999999999999876   345666666543211 


Q ss_pred             hcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCC-eEEEEEcCCCCC---
Q psy450          275 IGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD-VFILGATNRVDL---  350 (478)
Q Consensus       275 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~-v~vI~ttn~~~~---  350 (478)
                             ..++++....  ..+|+|||++.+.++.       .+ +..+..++..+   ...++ .+++++++.|..   
T Consensus        88 -------~~~~~~~~~~--~dlliiDdi~~~~~~~-------~~-~~~lf~l~n~~---~e~g~~~li~ts~~~p~~l~~  147 (235)
T PRK08084         88 -------VPEVLEGMEQ--LSLVCIDNIECIAGDE-------LW-EMAIFDLYNRI---LESGRTRLLITGDRPPRQLNL  147 (235)
T ss_pred             -------hHHHHHHhhh--CCEEEEeChhhhcCCH-------HH-HHHHHHHHHHH---HHcCCCeEEEeCCCChHHcCc
Confidence                   1122222222  2589999999986432       11 22233333322   22333 344444455544   


Q ss_pred             CCccccCCCCCCeEEEeCC-CCCHHHHHHHHHHHHhc--CCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHH
Q psy450          351 LDPAILRPGRLDKSLYVGL-YEDRISQLGVLKAVVRK--FKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII  427 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~-pp~~~~r~~il~~~~~~--~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~  427 (478)
                      +.+.+++  |+...+.+.+ ||+.+++..+++.....  +.+++++ ++.|++++  .-+.+.+..++......+..   
T Consensus       148 ~~~~L~S--Rl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~~l~~~v-~~~L~~~~--~~d~r~l~~~l~~l~~~~l~---  219 (235)
T PRK08084        148 GLPDLAS--RLDWGQIYKLQPLSDEEKLQALQLRARLRGFELPEDV-GRFLLKRL--DREMRTLFMTLDQLDRASIT---  219 (235)
T ss_pred             ccHHHHH--HHhCCceeeecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHhh--cCCHHHHHHHHHHHHHHHHh---
Confidence            5789999  9874444444 47899999999875554  4444444 77888876  23455666666553222211   


Q ss_pred             hcCCCCCCCCccccHHHHHhc
Q psy450          428 TSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       428 ~~~~~~~~~~~~it~~d~~~A  448 (478)
                              ....||.+.++++
T Consensus       220 --------~~~~it~~~~k~~  232 (235)
T PRK08084        220 --------AQRKLTIPFVKEI  232 (235)
T ss_pred             --------cCCCCCHHHHHHH
Confidence                    1335888888776

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.55  E-value=2.5e-13  Score=140.39  Aligned_cols=172  Identities=20%  Similarity=0.314  Sum_probs=122.2

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++++|++++++.|...+..     +..++.+||+||||||||++|+++|+.+.+.                   
T Consensus         8 yRP~~~~dvvGq~~v~~~L~~~i~~-----~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~   82 (504)
T PRK14963          8 ARPITFDEVVGQEHVKEVLLAALRQ-----GRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRG   82 (504)
T ss_pred             hCCCCHHHhcChHHHHHHHHHHHHc-----CCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcC
Confidence            4567899999999999999887664     2236667999999999999999999988531                   


Q ss_pred             ----EEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC
Q psy450          262 ----FLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV  333 (478)
Q Consensus       262 ----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~  333 (478)
                          ++.++...      ......++++...+.    ...+.|++|||+|.+.             ...++.|+..++. 
T Consensus        83 ~h~dv~el~~~~------~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls-------------~~a~naLLk~LEe-  142 (504)
T PRK14963         83 AHPDVLEIDAAS------NNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMS-------------KSAFNALLKTLEE-  142 (504)
T ss_pred             CCCceEEecccc------cCCHHHHHHHHHHHhhccccCCCeEEEEECccccC-------------HHHHHHHHHHHHh-
Confidence                33444321      122334555544432    2346799999999775             3457788888875 


Q ss_pred             CCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhc
Q psy450          334 HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHF  402 (478)
Q Consensus       334 ~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~  402 (478)
                       ....+++|.+++.+..+.+.+++  |+. .+.|.. ++.++...+++..+++.++..+. .+..++..+
T Consensus       143 -p~~~t~~Il~t~~~~kl~~~I~S--Rc~-~~~f~~-ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s  207 (504)
T PRK14963        143 -PPEHVIFILATTEPEKMPPTILS--RTQ-HFRFRR-LTEEEIAGKLRRLLEAEGREAEPEALQLVARLA  207 (504)
T ss_pred             -CCCCEEEEEEcCChhhCChHHhc--ceE-EEEecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Confidence             33467777788888999999998  874 677775 68888888998888766654322 255566654

>PRK05642 DNA replication initiation factor; Validated

Probab=99.54  E-value=5.7e-13  Score=125.21  Aligned_cols=212  Identities=15%  Similarity=0.161  Sum_probs=127.6

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhh-CCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRT-SGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK  273 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~-~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~  273 (478)
                      ....|..+|++++.-..  ......+..+... .+.....++|+||+|+|||||++++++++   +..+++++..++...
T Consensus        10 ~~~~~~~tfdnF~~~~~--~~a~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~   87 (234)
T PRK05642         10 VRLRDDATFANYYPGAN--AAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDR   87 (234)
T ss_pred             CCCCCcccccccCcCCh--HHHHHHHHHHhhccccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhh
Confidence            44456778888763221  2223333222111 12224679999999999999999998765   578888988777542


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC---
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL---  350 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~---  350 (478)
                      .        ..+.+.....  .+|+|||++.+.++.           .....|...++.....++.++++++..|..   
T Consensus        88 ~--------~~~~~~~~~~--d~LiiDDi~~~~~~~-----------~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~  146 (234)
T PRK05642         88 G--------PELLDNLEQY--ELVCLDDLDVIAGKA-----------DWEEALFHLFNRLRDSGRRLLLAASKSPRELPI  146 (234)
T ss_pred             h--------HHHHHhhhhC--CEEEEechhhhcCCh-----------HHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCc
Confidence            1        2233333333  589999999886432           112233334443334456677766666643   


Q ss_pred             CCccccCCCCCCeEEEeCC-CCCHHHHHHHHHHHHhcC--CCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHH
Q psy450          351 LDPAILRPGRLDKSLYVGL-YEDRISQLGVLKAVVRKF--KLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII  427 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~-pp~~~~r~~il~~~~~~~--~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~  427 (478)
                      ..+.+++  ||...+.+.+ ||+.+++..+++......  .+++++ ++.++.+.  .-+.+.+..++..-...+...  
T Consensus       147 ~~~~L~S--Rl~~gl~~~l~~~~~e~~~~il~~ka~~~~~~l~~ev-~~~L~~~~--~~d~r~l~~~l~~l~~~~l~~--  219 (234)
T PRK05642        147 KLPDLKS--RLTLALVFQMRGLSDEDKLRALQLRASRRGLHLTDEV-GHFILTRG--TRSMSALFDLLERLDQASLQA--  219 (234)
T ss_pred             cCccHHH--HHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHhc--CCCHHHHHHHHHHHHHHHHHc--
Confidence            3688898  9976665544 468999999998555443  344333 67777765  345566666655443322221  


Q ss_pred             hcCCCCCCCCccccHHHHHhc
Q psy450          428 TSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       428 ~~~~~~~~~~~~it~~d~~~A  448 (478)
                               ..+||..-++++
T Consensus       220 ---------~~~it~~~~~~~  231 (234)
T PRK05642        220 ---------QRKLTIPFLKET  231 (234)
T ss_pred             ---------CCcCCHHHHHHH
Confidence                     235777766665

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.54  E-value=1.4e-13  Score=143.87  Aligned_cols=187  Identities=20%  Similarity=0.223  Sum_probs=132.0

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcE------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNF------------------  262 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~------------------  262 (478)
                      +.+.+|++++|++.+++.|...+..     +..++++||+||+|||||++|+++|+.+++.-                  
T Consensus        10 YRP~tFddIIGQe~vv~~L~~ai~~-----~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~   84 (709)
T PRK08691         10 WRPKTFADLVGQEHVVKALQNALDE-----GRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDA   84 (709)
T ss_pred             hCCCCHHHHcCcHHHHHHHHHHHHc-----CCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhc
Confidence            4567899999999999999887663     23367899999999999999999999886531                  


Q ss_pred             ------EEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          263 ------LAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       263 ------~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                            +.++.+      .+.....++.++..+.    .....|++|||+|.+.             ....+.|++.++.
T Consensus        85 g~~~DvlEidaA------s~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls-------------~~A~NALLKtLEE  145 (709)
T PRK08691         85 GRYVDLLEIDAA------SNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLS-------------KSAFNAMLKTLEE  145 (709)
T ss_pred             cCccceEEEecc------ccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccC-------------HHHHHHHHHHHHh
Confidence                  122211      1123345666666542    2345799999999875             3456788888885


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di  411 (478)
                        ....+.+|.+|+.+..+.+.+++  |+ ..+.|.. ++.++...+++..+++.++.-+. .+..|++..  +-+.+++
T Consensus       146 --Pp~~v~fILaTtd~~kL~~TIrS--RC-~~f~f~~-Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A--~GslRdA  217 (709)
T PRK08691        146 --PPEHVKFILATTDPHKVPVTVLS--RC-LQFVLRN-MTAQQVADHLAHVLDSEKIAYEPPALQLLGRAA--AGSMRDA  217 (709)
T ss_pred             --CCCCcEEEEEeCCccccchHHHH--HH-hhhhcCC-CCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHh--CCCHHHH
Confidence              34567778888889999999997  88 4555554 68888888998888876654332 256666654  3455666


Q ss_pred             HHHHHHHH
Q psy450          412 YSICSNAW  419 (478)
Q Consensus       412 ~~l~~~a~  419 (478)
                      .+++..+.
T Consensus       218 lnLLDqai  225 (709)
T PRK08691        218 LSLLDQAI  225 (709)
T ss_pred             HHHHHHHH
Confidence            66665544

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

Probab=99.54  E-value=1.3e-13  Score=136.10  Aligned_cols=168  Identities=24%  Similarity=0.369  Sum_probs=122.8

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhC--------CCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh-hhhc-c
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTS--------GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN-KYIG-Q  277 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~--------~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~-~~~g-~  277 (478)
                      .++|++.+|+.+...+.....+.        ...|.++||+||||||||++|+++|+.++.+|+.++++.+.. .|.| .
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~d   95 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD   95 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccCC
Confidence            48999999999988876532221        122689999999999999999999999999999999987774 5666 3


Q ss_pred             hHHHHHHHHHHhH-------------------------------------------------------------------
Q psy450          278 SEENIRNVFLKAR-------------------------------------------------------------------  290 (478)
Q Consensus       278 ~~~~~~~~~~~a~-------------------------------------------------------------------  290 (478)
                      .+..++.++..|.                                                                   
T Consensus        96 ~e~~ir~L~~~A~~~~~~~~~~~~~~~a~~~~e~ri~~~l~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~g~ldd~~iei  175 (443)
T PRK05201         96 VESIIRDLVEIAVKMVREEKREKVREKAEEAAEERILDALLPPAKNNWGEEEEKEEISATRQKFRKKLREGELDDKEIEI  175 (443)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhCCCccCCccccccchhhhHHHHHHHHHHHcCCcCCcEEEE
Confidence            3455555554440                                                                   


Q ss_pred             -----------------------------------------------------------------------hCCCeEEEE
Q psy450          291 -----------------------------------------------------------------------SAAPCVVFF  299 (478)
Q Consensus       291 -----------------------------------------------------------------------~~~p~il~i  299 (478)
                                                                                             ....+||||
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~eA~~~l~~~e~~~lid~~~v~~~ai~~ae~~GIVfi  255 (443)
T PRK05201        176 EVAEAAPMMEIMGPPGMEEMTIQLQDMFGNLGPKKKKKRKLKVKEARKILIEEEAAKLIDMEEIKQEAIERVEQNGIVFI  255 (443)
T ss_pred             EecCCCCcccCCCCcchhHHHHHHHHHHHhhCCCCCceEEeEHHHHHHHHHHHHHHhccChHHHHHHHHHHHHcCCEEEE
Confidence                                                                                   013469999


Q ss_pred             cCCccccCCCCCC-CCCchhHHHHHHHHHHhhcCCCC--------CCCeEEEEEcC----CCCCCCccccCCCCCCeEEE
Q psy450          300 DELDSLAPRRGQE-DQSSGVMDRVVSQLLAEMDGVHT--------SQDVFILGATN----RVDLLDPAILRPGRLDKSLY  366 (478)
Q Consensus       300 Deid~l~~~~~~~-~~~~~~~~~~~~~ll~~l~~~~~--------~~~v~vI~ttn----~~~~ld~~l~~~~Rf~~~i~  366 (478)
                      ||||+++.+.++. .+.++  ..+...||..++|..-        ..++++||+.-    .|+.|-|.|.-  ||...+.
T Consensus       256 DEiDKIa~~~~~~~~DvS~--eGVQ~~LLki~EG~~v~~k~~~i~T~~ILFI~~GAF~~~kp~DlIPEl~G--R~Pi~v~  331 (443)
T PRK05201        256 DEIDKIAARGGSSGPDVSR--EGVQRDLLPLVEGSTVSTKYGMVKTDHILFIASGAFHVSKPSDLIPELQG--RFPIRVE  331 (443)
T ss_pred             EcchhhcccCCCCCCCCCc--cchhcccccccccceeeecceeEECCceeEEecCCcCCCChhhccHHHhC--ccceEEE
Confidence            9999999764321 12222  3577888888887432        45678887653    46667778875  9999999


Q ss_pred             eCCCCCHHHHHHHH
Q psy450          367 VGLYEDRISQLGVL  380 (478)
Q Consensus       367 ~~~pp~~~~r~~il  380 (478)
                      +.. .+.++...||
T Consensus       332 L~~-L~~~dL~~IL  344 (443)
T PRK05201        332 LDA-LTEEDFVRIL  344 (443)
T ss_pred             CCC-CCHHHHHHHh
Confidence            975 7999988888

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.54  E-value=1.3e-13  Score=135.94  Aligned_cols=168  Identities=22%  Similarity=0.348  Sum_probs=121.1

Q ss_pred             cccCcHHHHHHHHHHHHhhhhh--------CCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh-hhhc-c
Q psy450          208 DIGGLSKLKAEILSTFRGVNRT--------SGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN-KYIG-Q  277 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~--------~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~-~~~g-~  277 (478)
                      .++|++++|+.+...+.....+        ....|+++||+||||||||++|+++|+.++.+|+.+++..+.. .|.| .
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~~e~g~vG~d   92 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD   92 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecceeecCCcccCC
Confidence            4799999999998777653221        1223789999999999999999999999999999999877653 4555 3


Q ss_pred             hHHHHHHHHHHh--------------------------------------------------------------------
Q psy450          278 SEENIRNVFLKA--------------------------------------------------------------------  289 (478)
Q Consensus       278 ~~~~~~~~~~~a--------------------------------------------------------------------  289 (478)
                      .+..++.+|..|                                                                    
T Consensus        93 vE~i~r~l~e~A~~~i~~d~i~~~r~~a~~~ae~riv~~Ll~~~~~~~~~~~~~~~~~~~r~~~~~~l~~g~ldd~~iei  172 (441)
T TIGR00390        93 VESMVRDLTDAAVKLVKEEAIEKVRDRAEELAEERIVDVLLPPAKNQWGQTEQQQEPESAREAFRKKLREGELDDKEIEI  172 (441)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcCCccccccccccccchHHHHHHHHHHHhcCCccCcEEEE
Confidence            445555444443                                                                    


Q ss_pred             -----------------------------------------------------------------------HhCCCeEEE
Q psy450          290 -----------------------------------------------------------------------RSAAPCVVF  298 (478)
Q Consensus       290 -----------------------------------------------------------------------~~~~p~il~  298 (478)
                                                                                             +.....|||
T Consensus       173 ~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ea~~~l~~~e~~~lid~~~v~~~a~~~~e~~GIVf  252 (441)
T TIGR00390       173 DVSAKMPSGIEIMAPPGMEEMTMQLQSLFQNLGGQKKKKRKLKIKDAKKALIAEEAAKLVDPEEIKQEAIDAVEQSGIIF  252 (441)
T ss_pred             eecCCCCCccccCCCcchhHHHhhHHHHHHhhcCCCCceEEeEHHHHHHHHHHHHHHhccChHHHHHHHHHHHHcCCEEE
Confidence                                                                                   011346999


Q ss_pred             EcCCccccCCCCCC-CCCchhHHHHHHHHHHhhcCCCC--------CCCeEEEEEcC----CCCCCCccccCCCCCCeEE
Q psy450          299 FDELDSLAPRRGQE-DQSSGVMDRVVSQLLAEMDGVHT--------SQDVFILGATN----RVDLLDPAILRPGRLDKSL  365 (478)
Q Consensus       299 iDeid~l~~~~~~~-~~~~~~~~~~~~~ll~~l~~~~~--------~~~v~vI~ttn----~~~~ld~~l~~~~Rf~~~i  365 (478)
                      |||||+++.+..+. .+.++  ..+...||..++|..-        ..++++|++.-    .|+.|=|.|.-  ||...+
T Consensus       253 iDEiDKIa~~~~~~~~DvS~--eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~~GAF~~~kp~DlIPEl~G--R~Pi~v  328 (441)
T TIGR00390       253 IDEIDKIAKKGESSGADVSR--EGVQRDLLPIVEGSTVNTKYGMVKTDHILFIAAGAFQLAKPSDLIPELQG--RFPIRV  328 (441)
T ss_pred             EEchhhhcccCCCCCCCCCc--cchhccccccccCceeeecceeEECCceeEEecCCcCCCChhhccHHHhC--ccceEE
Confidence            99999999764221 12222  3577888888887432        45678887654    45666677775  999999


Q ss_pred             EeCCCCCHHHHHHHH
Q psy450          366 YVGLYEDRISQLGVL  380 (478)
Q Consensus       366 ~~~~pp~~~~r~~il  380 (478)
                      .+.. .+.++...||
T Consensus       329 ~L~~-L~~edL~rIL  342 (441)
T TIGR00390       329 ELQA-LTTDDFERIL  342 (441)
T ss_pred             ECCC-CCHHHHHHHh
Confidence            9985 7999988888

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.

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.54  E-value=3.1e-13  Score=141.26  Aligned_cols=185  Identities=15%  Similarity=0.174  Sum_probs=126.7

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++++|++.+++.|...+..     +..++.+||+||+|||||++|+++|+.+.+.                   
T Consensus         7 yRP~~f~eivGq~~i~~~L~~~i~~-----~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~   81 (584)
T PRK14952          7 YRPATFAEVVGQEHVTEPLSSALDA-----GRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAP   81 (584)
T ss_pred             hCCCcHHHhcCcHHHHHHHHHHHHc-----CCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhc
Confidence            4456899999999999999887653     3336668999999999999999999988642                   


Q ss_pred             -------EEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhh
Q psy450          262 -------FLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEM  330 (478)
Q Consensus       262 -------~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l  330 (478)
                             ++.++.+.      ......++++.+.+.    .....|++|||+|.+.             ....+.|++.+
T Consensus        82 ~~~~~~dvieidaas------~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt-------------~~A~NALLK~L  142 (584)
T PRK14952         82 NGPGSIDVVELDAAS------HGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVT-------------TAGFNALLKIV  142 (584)
T ss_pred             ccCCCceEEEecccc------ccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCC-------------HHHHHHHHHHH
Confidence                   22222211      112334444443332    2345699999999996             34678899999


Q ss_pred             cCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHH
Q psy450          331 DGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGA  409 (478)
Q Consensus       331 ~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~  409 (478)
                      +.  ....+++|.+|+.++.+.+.+++  |+ ..+.|.. ++.++..++++..+++.++.-+. .+..++...  +-+.+
T Consensus       143 EE--pp~~~~fIL~tte~~kll~TI~S--Rc-~~~~F~~-l~~~~i~~~L~~i~~~egi~i~~~al~~Ia~~s--~GdlR  214 (584)
T PRK14952        143 EE--PPEHLIFIFATTEPEKVLPTIRS--RT-HHYPFRL-LPPRTMRALIARICEQEGVVVDDAVYPLVIRAG--GGSPR  214 (584)
T ss_pred             hc--CCCCeEEEEEeCChHhhHHHHHH--hc-eEEEeeC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCCHH
Confidence            85  45578888888888999999998  86 5777775 57788888888887766643332 244455443  33444


Q ss_pred             HHHHHHHH
Q psy450          410 DIYSICSN  417 (478)
Q Consensus       410 di~~l~~~  417 (478)
                      +..+++..
T Consensus       215 ~aln~Ldq  222 (584)
T PRK14952        215 DTLSVLDQ  222 (584)
T ss_pred             HHHHHHHH
Confidence            44444443

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.53  E-value=1.8e-13  Score=140.13  Aligned_cols=202  Identities=13%  Similarity=0.242  Sum_probs=123.6

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhhhhhhcc
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELLNKYIGQ  277 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~~~~~g~  277 (478)
                      ..+|++++.-+.....+. .+......++...++++|||++|+|||+|++++++++     +..++++++.++...+...
T Consensus       111 ~~tFdnFv~g~~n~~A~~-aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~  189 (450)
T PRK14087        111 ENTFENFVIGSSNEQAFI-AVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDI  189 (450)
T ss_pred             ccchhcccCCCcHHHHHH-HHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHH
Confidence            467888763332222222 2222223334345679999999999999999999865     4688899998887665433


Q ss_pred             hHH---HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC---CC
Q psy450          278 SEE---NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD---LL  351 (478)
Q Consensus       278 ~~~---~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~---~l  351 (478)
                      ...   .+..+....  ..+.+|+|||++.+.++.        .....+..+++.+   ...++.+|+++...|.   .+
T Consensus       190 l~~~~~~~~~~~~~~--~~~dvLiIDDiq~l~~k~--------~~~e~lf~l~N~~---~~~~k~iIltsd~~P~~l~~l  256 (450)
T PRK14087        190 LQKTHKEIEQFKNEI--CQNDVLIIDDVQFLSYKE--------KTNEIFFTIFNNF---IENDKQLFFSSDKSPELLNGF  256 (450)
T ss_pred             HHHhhhHHHHHHHHh--ccCCEEEEeccccccCCH--------HHHHHHHHHHHHH---HHcCCcEEEECCCCHHHHhhc
Confidence            221   222222222  345699999999887432        1122333333333   2333444444334443   35


Q ss_pred             CccccCCCCCCeEEEeCC-CCCHHHHHHHHHHHHhcCCC----CCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Q psy450          352 DPAILRPGRLDKSLYVGL-YEDRISQLGVLKAVVRKFKL----SDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAI  423 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~-pp~~~~r~~il~~~~~~~~~----~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~  423 (478)
                      ++.+.+  ||...+.+++ ||+.++|..|++..++..++    +.+ -+..|+..+  +-+.+.+..+|..+...+.
T Consensus       257 ~~rL~S--R~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~e-vl~~Ia~~~--~gd~R~L~gaL~~l~~~a~  328 (450)
T PRK14087        257 DNRLIT--RFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVTEE-AINFISNYY--SDDVRKIKGSVSRLNFWSQ  328 (450)
T ss_pred             cHHHHH--HHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCCHH-HHHHHHHcc--CCCHHHHHHHHHHHHHHHh
Confidence            788888  9987777777 68999999999988876442    222 266677665  2356677777776654443

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.53  E-value=4.8e-13  Score=140.50  Aligned_cols=186  Identities=21%  Similarity=0.256  Sum_probs=130.5

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC--------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM--------------------  260 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~--------------------  260 (478)
                      +.+.+|++++|++.+++.|...+..     +..++.+||+||+|||||++|+.+|+.+.+                    
T Consensus        10 ~rP~~f~~viGq~~v~~~L~~~i~~-----~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~   84 (559)
T PRK05563         10 WRPQTFEDVVGQEHITKTLKNAIKQ-----GKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITN   84 (559)
T ss_pred             hCCCcHHhccCcHHHHHHHHHHHHc-----CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhc
Confidence            3456799999999999999887654     223667999999999999999999998753                    


Q ss_pred             ----cEEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          261 ----NFLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       261 ----~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                          .++.++.+      .+.....++++...+.    .....|++|||+|.|.             ....+.|++.++.
T Consensus        85 g~~~dv~eidaa------s~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt-------------~~a~naLLKtLEe  145 (559)
T PRK05563         85 GSLMDVIEIDAA------SNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLS-------------TGAFNALLKTLEE  145 (559)
T ss_pred             CCCCCeEEeecc------ccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCC-------------HHHHHHHHHHhcC
Confidence                23333321      1234455667766654    2345699999999986             3467889998885


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di  411 (478)
                      .  ...+++|.+|+.++.+++.+++  |+. .+.|.. ++..+...+++..+++.++.-+ ..+..++... +| +.++.
T Consensus       146 p--p~~~ifIlatt~~~ki~~tI~S--Rc~-~~~f~~-~~~~ei~~~L~~i~~~egi~i~~~al~~ia~~s-~G-~~R~a  217 (559)
T PRK05563        146 P--PAHVIFILATTEPHKIPATILS--RCQ-RFDFKR-ISVEDIVERLKYILDKEGIEYEDEALRLIARAA-EG-GMRDA  217 (559)
T ss_pred             C--CCCeEEEEEeCChhhCcHHHHh--Hhe-EEecCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CC-CHHHH
Confidence            3  4567777778889999999998  885 566765 6788888888888876665433 2255566654 33 44455


Q ss_pred             HHHHHHH
Q psy450          412 YSICSNA  418 (478)
Q Consensus       412 ~~l~~~a  418 (478)
                      .+++..+
T Consensus       218 l~~Ldq~  224 (559)
T PRK05563        218 LSILDQA  224 (559)
T ss_pred             HHHHHHH
Confidence            4444433

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.53  E-value=2.5e-13  Score=141.46  Aligned_cols=172  Identities=16%  Similarity=0.193  Sum_probs=119.7

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++|+|++.+++.|...+..     +.-+.++||+||+|||||++|+.+|+.+.+.                   
T Consensus        10 yRP~sf~dIiGQe~v~~~L~~ai~~-----~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~   84 (624)
T PRK14959         10 YRPQTFAEVAGQETVKAILSRAAQE-----NRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQ   84 (624)
T ss_pred             hCCCCHHHhcCCHHHHHHHHHHHHc-----CCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhc
Confidence            4567899999999999999887753     2226679999999999999999999998653                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHh----HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKA----RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           ++.++...      ...-..++.+.+.+    ......|++|||+|.+.             ....+.|++.++.
T Consensus        85 g~hpDv~eId~a~------~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt-------------~~a~naLLk~LEE  145 (624)
T PRK14959         85 GMHVDVVEIDGAS------NRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLT-------------REAFNALLKTLEE  145 (624)
T ss_pred             CCCCceEEEeccc------ccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCC-------------HHHHHHHHHHhhc
Confidence                 33343211      01122333332222    23345799999999996             3457888888885


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhc
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHF  402 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~  402 (478)
                        ...++++|++|+.+..+.+.+++  |+. .+.|.. ++.++...+++..+.+.++.-+ ..+..++..+
T Consensus       146 --P~~~~ifILaTt~~~kll~TI~S--Rcq-~i~F~p-Ls~~eL~~~L~~il~~egi~id~eal~lIA~~s  210 (624)
T PRK14959        146 --PPARVTFVLATTEPHKFPVTIVS--RCQ-HFTFTR-LSEAGLEAHLTKVLGREGVDYDPAAVRLIARRA  210 (624)
T ss_pred             --cCCCEEEEEecCChhhhhHHHHh--hhh-ccccCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Confidence              34567888888888888889998  884 567765 6788888888877766554322 2255555544

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.53  E-value=3.8e-13  Score=139.30  Aligned_cols=186  Identities=18%  Similarity=0.234  Sum_probs=125.4

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC---------------------
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM---------------------  260 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~---------------------  260 (478)
                      .+.+|++++|++.+++.|...+..     +..++.+||+||+|+|||++|+.+|+.+.+                     
T Consensus        11 RP~~f~diiGq~~~v~~L~~~i~~-----~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~   85 (546)
T PRK14957         11 RPQSFAEVAGQQHALNSLVHALET-----QKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNN   85 (546)
T ss_pred             CcCcHHHhcCcHHHHHHHHHHHHc-----CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcC
Confidence            456799999999999998877653     222666899999999999999999998864                     


Q ss_pred             ---cEEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC
Q psy450          261 ---NFLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV  333 (478)
Q Consensus       261 ---~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~  333 (478)
                         .++.++...-      .....++.+++.+.    .+...|++|||+|.+.             ....+.|++.++. 
T Consensus        86 ~~~dlieidaas~------~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls-------------~~a~naLLK~LEe-  145 (546)
T PRK14957         86 SFIDLIEIDAASR------TGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLS-------------KQSFNALLKTLEE-  145 (546)
T ss_pred             CCCceEEeecccc------cCHHHHHHHHHHHHhhhhcCCcEEEEEechhhcc-------------HHHHHHHHHHHhc-
Confidence               2233332110      11223444544433    2345699999999986             3567889999885 


Q ss_pred             CCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHHH
Q psy450          334 HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADIY  412 (478)
Q Consensus       334 ~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di~  412 (478)
                       ....+.+|++|+.+..+.+.+++  |+ ..+.+.. ++.++...+++..+++.++..+. .+..++..+  +-+.+++.
T Consensus       146 -pp~~v~fIL~Ttd~~kil~tI~S--Rc-~~~~f~~-Ls~~eI~~~L~~il~~egi~~e~~Al~~Ia~~s--~GdlR~al  218 (546)
T PRK14957        146 -PPEYVKFILATTDYHKIPVTILS--RC-IQLHLKH-ISQADIKDQLKIILAKENINSDEQSLEYIAYHA--KGSLRDAL  218 (546)
T ss_pred             -CCCCceEEEEECChhhhhhhHHH--he-eeEEeCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCCHHHHH
Confidence             34556677777778888888988  88 6777775 67888888888877766554332 245555554  33444444


Q ss_pred             HHHHHHH
Q psy450          413 SICSNAW  419 (478)
Q Consensus       413 ~l~~~a~  419 (478)
                      +++..+.
T Consensus       219 nlLek~i  225 (546)
T PRK14957        219 SLLDQAI  225 (546)
T ss_pred             HHHHHHH
Confidence            5544433

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.52  E-value=2.5e-13  Score=142.46  Aligned_cols=185  Identities=15%  Similarity=0.189  Sum_probs=128.2

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++++|++.+++.|...+..-     ..++.+||+||+|||||++|+++|+.+++.                   
T Consensus        10 yRP~~f~dviGQe~vv~~L~~~l~~~-----rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C   84 (618)
T PRK14951         10 YRPRSFSEMVGQEHVVQALTNALTQQ-----RLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQAC   84 (618)
T ss_pred             HCCCCHHHhcCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHH
Confidence            34568999999999999988876532     236678999999999999999999998652                   


Q ss_pred             ----------EEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHH
Q psy450          262 ----------FLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLL  327 (478)
Q Consensus       262 ----------~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll  327 (478)
                                ++.++..      .......++++.+.+..    +...|++|||+|.|.             ....+.|+
T Consensus        85 ~~i~~g~h~D~~eldaa------s~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls-------------~~a~NaLL  145 (618)
T PRK14951         85 RDIDSGRFVDYTELDAA------SNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLT-------------NTAFNAML  145 (618)
T ss_pred             HHHHcCCCCceeecCcc------cccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCC-------------HHHHHHHH
Confidence                      2222211      11223356666665432    234699999999997             34578888


Q ss_pred             HhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCC
Q psy450          328 AEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQM  406 (478)
Q Consensus       328 ~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~  406 (478)
                      +.++.  ....+.+|.+|+.++.+.+.+++  |+ ..+.+.. ++.++...+++..+.+.++..+. .+..++... + -
T Consensus       146 KtLEE--PP~~~~fIL~Ttd~~kil~TIlS--Rc-~~~~f~~-Ls~eei~~~L~~i~~~egi~ie~~AL~~La~~s-~-G  217 (618)
T PRK14951        146 KTLEE--PPEYLKFVLATTDPQKVPVTVLS--RC-LQFNLRP-MAPETVLEHLTQVLAAENVPAEPQALRLLARAA-R-G  217 (618)
T ss_pred             Hhccc--CCCCeEEEEEECCchhhhHHHHH--hc-eeeecCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-C-C
Confidence            88885  34567777788888889889998  87 5677765 67888888888887766654332 256666654 3 3


Q ss_pred             CHHHHHHHHHH
Q psy450          407 SGADIYSICSN  417 (478)
Q Consensus       407 sg~di~~l~~~  417 (478)
                      +.+++.+++..
T Consensus       218 slR~al~lLdq  228 (618)
T PRK14951        218 SMRDALSLTDQ  228 (618)
T ss_pred             CHHHHHHHHHH
Confidence            44555555443

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.52  E-value=2.8e-13  Score=146.84  Aligned_cols=172  Identities=15%  Similarity=0.166  Sum_probs=120.2

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +...+|++|+|++.+++.|+..+..     +..++.+||+||+|||||++|+.+|+.+.+.                   
T Consensus         9 yRP~~f~eiiGqe~v~~~L~~~i~~-----~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~   83 (824)
T PRK07764          9 YRPATFAEVIGQEHVTEPLSTALDS-----GRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAP   83 (824)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHh-----CCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHc
Confidence            4456899999999999999887653     2235668999999999999999999999652                   


Q ss_pred             -------EEEEechhhhhhhhcchHHHHHHHHHHh----HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhh
Q psy450          262 -------FLAVKGPELLNKYIGQSEENIRNVFLKA----RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEM  330 (478)
Q Consensus       262 -------~~~v~~~~l~~~~~g~~~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l  330 (478)
                             ++.++...      ......++++.+.+    ......|+||||+|.|.             ....+.|++.+
T Consensus        84 g~~~~~dv~eidaas------~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt-------------~~a~NaLLK~L  144 (824)
T PRK07764         84 GGPGSLDVTEIDAAS------HGGVDDARELRERAFFAPAESRYKIFIIDEAHMVT-------------PQGFNALLKIV  144 (824)
T ss_pred             CCCCCCcEEEecccc------cCCHHHHHHHHHHHHhchhcCCceEEEEechhhcC-------------HHHHHHHHHHH
Confidence                   22222211      01223344443332    23455799999999997             35678899999


Q ss_pred             cCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhc
Q psy450          331 DGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHF  402 (478)
Q Consensus       331 ~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~  402 (478)
                      +..  ...+++|++|+.++.|.+.|++  |+ ..+.|.. +..++...+++..+++.++..+. .+..++...
T Consensus       145 EEp--P~~~~fIl~tt~~~kLl~TIrS--Rc-~~v~F~~-l~~~~l~~~L~~il~~EGv~id~eal~lLa~~s  211 (824)
T PRK07764        145 EEP--PEHLKFIFATTEPDKVIGTIRS--RT-HHYPFRL-VPPEVMRGYLERICAQEGVPVEPGVLPLVIRAG  211 (824)
T ss_pred             hCC--CCCeEEEEEeCChhhhhHHHHh--he-eEEEeeC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Confidence            853  4567777788888889899998  87 5667765 57788888888887666554322 244455543

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.52  E-value=1.7e-13  Score=142.93  Aligned_cols=187  Identities=17%  Similarity=0.203  Sum_probs=129.1

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++++|++.+++.|...+..     +..++.+||+||+|+|||++|+.+|+.+++.                   
T Consensus        10 ~rP~~f~divGq~~v~~~L~~~i~~-----~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~   84 (527)
T PRK14969         10 WRPKSFSELVGQEHVVRALTNALEQ-----QRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDS   84 (527)
T ss_pred             hCCCcHHHhcCcHHHHHHHHHHHHc-----CCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhc
Confidence            3456899999999999998877653     2236678999999999999999999998652                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           ++.++.+      .......++.+...+..    ....|++|||+|.+.             ....+.|++.++.
T Consensus        85 ~~~~d~~ei~~~------~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls-------------~~a~naLLK~LEe  145 (527)
T PRK14969         85 GRFVDLIEVDAA------SNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLS-------------KSAFNAMLKTLEE  145 (527)
T ss_pred             CCCCceeEeecc------ccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCC-------------HHHHHHHHHHHhC
Confidence                 1222211      01234456666665532    334699999999986             3467889999985


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di  411 (478)
                        ....+.+|.+|+.++.+.+.+++  |+ ..+.|.. ++.++....++..+++.++..+. .+..++..+  +-+.++.
T Consensus       146 --pp~~~~fIL~t~d~~kil~tI~S--Rc-~~~~f~~-l~~~~i~~~L~~il~~egi~~~~~al~~la~~s--~Gslr~a  217 (527)
T PRK14969        146 --PPEHVKFILATTDPQKIPVTVLS--RC-LQFNLKQ-MPPPLIVSHLQHILEQENIPFDATALQLLARAA--AGSMRDA  217 (527)
T ss_pred             --CCCCEEEEEEeCChhhCchhHHH--HH-HHHhcCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCCHHHH
Confidence              34567777788888888888888  87 5677765 67888887887777665544332 245556554  3344555


Q ss_pred             HHHHHHHH
Q psy450          412 YSICSNAW  419 (478)
Q Consensus       412 ~~l~~~a~  419 (478)
                      .+++..+.
T Consensus       218 l~lldqai  225 (527)
T PRK14969        218 LSLLDQAI  225 (527)
T ss_pred             HHHHHHHH
Confidence            55555443

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

Probab=99.52  E-value=3.6e-13  Score=133.30  Aligned_cols=204  Identities=15%  Similarity=0.232  Sum_probs=136.6

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELLNK  273 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~~~  273 (478)
                      ...|..+|++++.-............++. .+|...+.++||||+|+|||||+++++++.     +..+++++...+...
T Consensus        79 ~l~~~ytFdnFv~g~~N~~A~aa~~~va~-~~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~  157 (408)
T COG0593          79 GLNPKYTFDNFVVGPSNRLAYAAAKAVAE-NPGGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTND  157 (408)
T ss_pred             cCCCCCchhheeeCCchHHHHHHHHHHHh-ccCCcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHH
Confidence            45678889998765554444433333332 233345569999999999999999999887     346888888887766


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC---
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL---  350 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~---  350 (478)
                      ++......-.+-|+.-.  +-.+++|||++.+.++.           +....+...+..+...++.+|+.+...|..   
T Consensus       158 ~v~a~~~~~~~~Fk~~y--~~dlllIDDiq~l~gk~-----------~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~  224 (408)
T COG0593         158 FVKALRDNEMEKFKEKY--SLDLLLIDDIQFLAGKE-----------RTQEEFFHTFNALLENGKQIVLTSDRPPKELNG  224 (408)
T ss_pred             HHHHHHhhhHHHHHHhh--ccCeeeechHhHhcCCh-----------hHHHHHHHHHHHHHhcCCEEEEEcCCCchhhcc
Confidence            65554443334454444  34699999999998653           234445555555455566666666666755   


Q ss_pred             CCccccCCCCCCeEEEeCC-CCCHHHHHHHHHHHHhcCC--CCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy450          351 LDPAILRPGRLDKSLYVGL-YEDRISQLGVLKAVVRKFK--LSDDVSLDSLVHHFPSQMSGADIYSICSNAWTR  421 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~-pp~~~~r~~il~~~~~~~~--~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~  421 (478)
                      +.+.|++  ||.+.+.+.+ ||+.+.|..|++......+  +++++ ...++.+.+  -+.+++..++......
T Consensus       225 ~~~rL~S--R~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~~i~~ev-~~~la~~~~--~nvReLegaL~~l~~~  293 (408)
T COG0593         225 LEDRLRS--RLEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPDEV-LEFLAKRLD--RNVRELEGALNRLDAF  293 (408)
T ss_pred             ccHHHHH--HHhceeEEeeCCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHHhh--ccHHHHHHHHHHHHHH
Confidence            4588898  9999887777 7899999999988665544  44443 667777762  3455666555544433

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.52  E-value=1e-12  Score=123.16  Aligned_cols=204  Identities=14%  Similarity=0.155  Sum_probs=124.0

Q ss_pred             CCCCccccc--CcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhc
Q psy450          202 PNVSWEDIG--GLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIG  276 (478)
Q Consensus       202 ~~~~~~~i~--g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g  276 (478)
                      ...+++++.  +.....+.+++.+.      ...+.+++|+||+|||||++|+++++.+   +.+++++++.++....  
T Consensus        10 ~~~~~~~~~~~~~~~~~~~l~~~~~------~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~~~--   81 (226)
T TIGR03420        10 DDPTFDNFYAGGNAELLAALRQLAA------GKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQAD--   81 (226)
T ss_pred             CchhhcCcCcCCcHHHHHHHHHHHh------cCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHHhH--
Confidence            345666665  35556666666543      2236789999999999999999999876   4688999988775432  


Q ss_pred             chHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCC---c
Q psy450          277 QSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD---P  353 (478)
Q Consensus       277 ~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld---~  353 (478)
                            ..++....  .+.+|+|||+|.+....       .. ...+..++..+.   ..+..+|+.++..+..++   +
T Consensus        82 ------~~~~~~~~--~~~lLvIDdi~~l~~~~-------~~-~~~L~~~l~~~~---~~~~~iIits~~~~~~~~~~~~  142 (226)
T TIGR03420        82 ------PEVLEGLE--QADLVCLDDVEAIAGQP-------EW-QEALFHLYNRVR---EAGGRLLIAGRAAPAQLPLRLP  142 (226)
T ss_pred             ------HHHHhhcc--cCCEEEEeChhhhcCCh-------HH-HHHHHHHHHHHH---HcCCeEEEECCCChHHCCcccH
Confidence                  22333222  23599999999986421       00 122333333322   222334444443443332   6


Q ss_pred             cccCCCCCC--eEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          354 AILRPGRLD--KSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       354 ~l~~~~Rf~--~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      .+.+  |+.  ..+.++. ++.+++..+++.+..+.++.-+ .-+..|+..+  +-+.+++.++++.+...+.+.     
T Consensus       143 ~L~~--r~~~~~~i~l~~-l~~~e~~~~l~~~~~~~~~~~~~~~l~~L~~~~--~gn~r~L~~~l~~~~~~~~~~-----  212 (226)
T TIGR03420       143 DLRT--RLAWGLVFQLPP-LSDEEKIAALQSRAARRGLQLPDEVADYLLRHG--SRDMGSLMALLDALDRASLAA-----  212 (226)
T ss_pred             HHHH--HHhcCeeEecCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhc--cCCHHHHHHHHHHHHHHHHHh-----
Confidence            6776  663  6677775 6789999999887665443322 2266677754  456778888888766433332     


Q ss_pred             CCCCCCCccccHHHHHhc
Q psy450          431 PQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       431 ~~~~~~~~~it~~d~~~A  448 (478)
                            ...||.+.+.+.
T Consensus       213 ------~~~i~~~~~~~~  224 (226)
T TIGR03420       213 ------KRKITIPFVKEV  224 (226)
T ss_pred             ------CCCCCHHHHHHH
Confidence                  235777666654

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.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.52  E-value=5.9e-13  Score=133.33  Aligned_cols=235  Identities=20%  Similarity=0.321  Sum_probs=147.6

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhC------C------CCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh-hh
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTS------G------LKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN-KY  274 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~------~------~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~-~~  274 (478)
                      .++|++++++.+...+.....+.      .      ....++||+||||||||++|+++|+.++.+|..+++..+.. .|
T Consensus        78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L~~~gy  157 (413)
T TIGR00382        78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGY  157 (413)
T ss_pred             eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhcccccc
Confidence            47999999999987764321111      0      11468999999999999999999999999999999877652 46


Q ss_pred             hcch-HHHHHHHHHHh----HhCCCeEEEEcCCccccCCCCCCCCCch-hHHHHHHHHHHhhcCCCC-----------CC
Q psy450          275 IGQS-EENIRNVFLKA----RSAAPCVVFFDELDSLAPRRGQEDQSSG-VMDRVVSQLLAEMDGVHT-----------SQ  337 (478)
Q Consensus       275 ~g~~-~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~-~~~~~~~~ll~~l~~~~~-----------~~  337 (478)
                      .|.. +..+...+..+    ....++||||||+|.+.+++.+.+-... ....+.+.|++.+++...           ..
T Consensus       158 vG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~gr~~~~~  237 (413)
T TIGR00382       158 VGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGRKHPYQ  237 (413)
T ss_pred             ccccHHHHHHHHHHhCcccHHhcccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecccCCCccccCC
Confidence            6764 33344444322    2345789999999999875432211100 112567778877765421           23


Q ss_pred             CeEEEEEcCCC---------------------------C-----------------------CCCccccCCCCCCeEEEe
Q psy450          338 DVFILGATNRV---------------------------D-----------------------LLDPAILRPGRLDKSLYV  367 (478)
Q Consensus       338 ~v~vI~ttn~~---------------------------~-----------------------~ld~~l~~~~Rf~~~i~~  367 (478)
                      +.++|.|+|-.                           +                       .+.|+++  ||++..+++
T Consensus       238 ~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEfl--gRld~Iv~f  315 (413)
T TIGR00382       238 EFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFI--GRLPVIATL  315 (413)
T ss_pred             CeEEEEcCCceeeecccccChHHHHHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHh--CCCCeEeec
Confidence            46777777751                           0                       0224444  499999998


Q ss_pred             CCCCCHHHHHHHHHH----HHhc----C---CCCC---CCCHHHHHHhc-CCCCCHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy450          368 GLYEDRISQLGVLKA----VVRK----F---KLSD---DVSLDSLVHHF-PSQMSGADIYSICSNAWTRAIRRIITSAPQ  432 (478)
Q Consensus       368 ~~pp~~~~r~~il~~----~~~~----~---~~~~---~~~~~~la~~~-~~~~sg~di~~l~~~a~~~a~~r~~~~~~~  432 (478)
                      .. .+.++..+|+..    +++.    +   ++.-   +.-++.++++. ...+-++.|+.+++......+-+.....  
T Consensus       316 ~p-L~~~~L~~Il~~~~n~l~kq~~~~l~~~gi~L~~t~~a~~~Ia~~~~~~~~GAR~Lr~iie~~l~~~m~e~p~~~--  392 (413)
T TIGR00382       316 EK-LDEEALIAILTKPKNALVKQYQALFKMDNVELDFEEEALKAIAKKALERKTGARGLRSIVEGLLLDVMFDLPSLE--  392 (413)
T ss_pred             CC-CCHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEECHHHHHHHHHhCCCCCCCchHHHHHHHHhhHHHHhhCCCCC--
Confidence            64 799999888854    2221    1   2211   12266677763 3345567888888887777776653311  


Q ss_pred             CCCCCccccHHHHHhc
Q psy450          433 VKSAPVIVTMDDFLGA  448 (478)
Q Consensus       433 ~~~~~~~it~~d~~~A  448 (478)
                       ......||.+.+...
T Consensus       393 -~~~~v~i~~~~v~~~  407 (413)
T TIGR00382       393 -DLEKVVITKETVLKQ  407 (413)
T ss_pred             -CCcEEEECHHHHcCc
Confidence             112345666665443

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.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.51  E-value=4.1e-13  Score=134.75  Aligned_cols=186  Identities=19%  Similarity=0.262  Sum_probs=127.8

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      ..+.+|++++|++++++.|...+..     +..++.+||+||||+|||++|+++++.+.+.                   
T Consensus         8 ~rp~~~~~iig~~~~~~~l~~~~~~-----~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~   82 (355)
T TIGR02397         8 YRPQTFEDVIGQEHIVQTLKNAIKN-----GRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINS   82 (355)
T ss_pred             hCCCcHhhccCcHHHHHHHHHHHHc-----CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhc
Confidence            4567899999999999999887642     3346779999999999999999999987432                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           ++.++...      ......++.++..+..    ....|++|||+|.+.             ....+.++..++.
T Consensus        83 ~~~~~~~~~~~~~------~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~-------------~~~~~~Ll~~le~  143 (355)
T TIGR02397        83 GSSLDVIEIDAAS------NNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLS-------------KSAFNALLKTLEE  143 (355)
T ss_pred             CCCCCEEEeeccc------cCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcC-------------HHHHHHHHHHHhC
Confidence                 23333221      1133345666665533    234599999999885             2456778888875


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di  411 (478)
                        ....+++|.+|+.++.+.+.+++  |+ ..+.++. |+.++...+++..+++.++.-+ ..+..++..+  +.+.+.+
T Consensus       144 --~~~~~~lIl~~~~~~~l~~~l~s--r~-~~~~~~~-~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~--~g~~~~a  215 (355)
T TIGR02397       144 --PPEHVVFILATTEPHKIPATILS--RC-QRFDFKR-IPLEDIVERLKKILDKEGIKIEDEALELIARAA--DGSLRDA  215 (355)
T ss_pred             --CccceeEEEEeCCHHHHHHHHHh--he-eEEEcCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCChHHH
Confidence              33467777788888888889998  87 4677774 7888999999888876664322 2255566654  2344444


Q ss_pred             HHHHHHH
Q psy450          412 YSICSNA  418 (478)
Q Consensus       412 ~~l~~~a  418 (478)
                      .+.+..+
T Consensus       216 ~~~lekl  222 (355)
T TIGR02397       216 LSLLDQL  222 (355)
T ss_pred             HHHHHHH
Confidence            4444433

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.

>KOG2028|consensus

Probab=99.51  E-value=3.9e-13  Score=127.43  Aligned_cols=154  Identities=22%  Similarity=0.410  Sum_probs=102.6

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc---EEEEechhhhhhhhc
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN---FLAVKGPELLNKYIG  276 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~---~~~v~~~~l~~~~~g  276 (478)
                      ...+.+++|.+|+++...+ ...+........  -.+++||||||||||++|+.|+.....+   |+.++..       .
T Consensus       131 rmRPktL~dyvGQ~hlv~q-~gllrs~ieq~~--ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt-------~  200 (554)
T KOG2028|consen  131 RMRPKTLDDYVGQSHLVGQ-DGLLRSLIEQNR--IPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSAT-------N  200 (554)
T ss_pred             hcCcchHHHhcchhhhcCc-chHHHHHHHcCC--CCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEecc-------c
Confidence            3456678888888887766 334433332222  3359999999999999999999988666   6666643       2


Q ss_pred             chHHHHHHHHHHhHh-----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEc-CCC-C
Q psy450          277 QSEENIRNVFLKARS-----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGAT-NRV-D  349 (478)
Q Consensus       277 ~~~~~~~~~~~~a~~-----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~tt-n~~-~  349 (478)
                      .....++++|+.+++     ....||||||++++...             -...|+-..    .++.+.+|++| ..| -
T Consensus       201 a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNks-------------QQD~fLP~V----E~G~I~lIGATTENPSF  263 (554)
T KOG2028|consen  201 AKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNKS-------------QQDTFLPHV----ENGDITLIGATTENPSF  263 (554)
T ss_pred             cchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhhh-------------hhhccccee----ccCceEEEecccCCCcc
Confidence            345568888888854     34579999999998632             123343332    34567777655 444 3


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                      .++.+|++  |+...+.-++  ....-..||..-.
T Consensus       264 qln~aLlS--RC~VfvLekL--~~n~v~~iL~rai  294 (554)
T KOG2028|consen  264 QLNAALLS--RCRVFVLEKL--PVNAVVTILMRAI  294 (554)
T ss_pred             chhHHHHh--ccceeEeccC--CHHHHHHHHHHHH
Confidence            58899999  8855555544  4566667776533

>PRK06620 hypothetical protein; Validated

Probab=99.51  E-value=9.7e-13  Score=121.60  Aligned_cols=200  Identities=14%  Similarity=0.124  Sum_probs=119.1

Q ss_pred             CCCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCC--ceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhh
Q psy450          197 DAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKR--SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKY  274 (478)
Q Consensus       197 ~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~--~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~  274 (478)
                      ..+..|..++++++.-+.....+.....+.. ..+..|  +.++|||||||||||+++++++..+..++  .....    
T Consensus         6 ~~~~~~~~tfd~Fvvg~~N~~a~~~~~~~~~-~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~--~~~~~----   78 (214)
T PRK06620          6 RFTTSSKYHPDEFIVSSSNDQAYNIIKNWQC-GFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNAYII--KDIFF----   78 (214)
T ss_pred             CCCCCCCCCchhhEecccHHHHHHHHHHHHH-ccccCCCcceEEEECCCCCCHHHHHHHHHhccCCEEc--chhhh----
Confidence            3456678889987665544433333333332 112223  67999999999999999999988765332  21110    


Q ss_pred             hcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC--CC
Q psy450          275 IGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL--LD  352 (478)
Q Consensus       275 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~--ld  352 (478)
                         .    ...+     ....+++|||+|.+.             ...+..+++.+   ...++.++++++..|..  + 
T Consensus        79 ---~----~~~~-----~~~d~lliDdi~~~~-------------~~~lf~l~N~~---~e~g~~ilits~~~p~~l~l-  129 (214)
T PRK06620         79 ---N----EEIL-----EKYNAFIIEDIENWQ-------------EPALLHIFNII---NEKQKYLLLTSSDKSRNFTL-  129 (214)
T ss_pred             ---c----hhHH-----hcCCEEEEeccccch-------------HHHHHHHHHHH---HhcCCEEEEEcCCCccccch-
Confidence               0    0111     123599999999542             12233333333   34556777777776654  5 


Q ss_pred             ccccCCCCCCeEEEeCC-CCCHHHHHHHHHHHHhcCC--CCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          353 PAILRPGRLDKSLYVGL-YEDRISQLGVLKAVVRKFK--LSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~-pp~~~~r~~il~~~~~~~~--~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      +.+++  |+...+.+.+ ||+.+.+..+++..+...+  ++.++ ++.|+.++  .-+.+.+..++......+..     
T Consensus       130 ~~L~S--Rl~~gl~~~l~~pd~~~~~~~l~k~~~~~~l~l~~ev-~~~L~~~~--~~d~r~l~~~l~~l~~~~~~-----  199 (214)
T PRK06620        130 PDLSS--RIKSVLSILLNSPDDELIKILIFKHFSISSVTISRQI-IDFLLVNL--PREYSKIIEILENINYFALI-----  199 (214)
T ss_pred             HHHHH--HHhCCceEeeCCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHc--cCCHHHHHHHHHHHHHHHHH-----
Confidence            78888  9876544444 4788999999987776443  44443 77788776  33455566655553221111     


Q ss_pred             CCCCCCCCccccHHHHHhc
Q psy450          430 APQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A  448 (478)
                            ....||...++++
T Consensus       200 ------~~~~it~~~~~~~  212 (214)
T PRK06620        200 ------SKRKITISLVKEV  212 (214)
T ss_pred             ------cCCCCCHHHHHHH
Confidence                  1335888887776

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.50  E-value=5.6e-13  Score=140.82  Aligned_cols=191  Identities=19%  Similarity=0.249  Sum_probs=129.4

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEE---Eechhhhh---h-
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLA---VKGPELLN---K-  273 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~---v~~~~l~~---~-  273 (478)
                      +.+.+|++++|++.+++.|...+..     +..++.+||+||+|+|||++|+++|+.+.+.-..   -.|.....   . 
T Consensus        12 yRP~~f~dIiGQe~~v~~L~~aI~~-----~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~   86 (725)
T PRK07133         12 YRPKTFDDIVGQDHIVQTLKNIIKS-----NKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNS   86 (725)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc-----CCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCC
Confidence            4567899999999999998887753     2336778999999999999999999988653110   01111100   0 


Q ss_pred             --------hhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEE
Q psy450          274 --------YIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFI  341 (478)
Q Consensus       274 --------~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~v  341 (478)
                              ........++.+.+.+..    +...|++|||+|.+.             ....+.|+..++.  +...+++
T Consensus        87 ~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT-------------~~A~NALLKtLEE--PP~~tif  151 (725)
T PRK07133         87 LDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLS-------------KSAFNALLKTLEE--PPKHVIF  151 (725)
T ss_pred             CcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCC-------------HHHHHHHHHHhhc--CCCceEE
Confidence                    001224456777666543    345799999999986             2467889999985  3456778


Q ss_pred             EEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC-HHHHHHhcCCCCCHHHHHHHHHH
Q psy450          342 LGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS-LDSLVHHFPSQMSGADIYSICSN  417 (478)
Q Consensus       342 I~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~-~~~la~~~~~~~sg~di~~l~~~  417 (478)
                      |.+|+.++.+.+.+++  |+. .+.|.. ++.++...+++..+.+.++..+.+ +..++..+  +-+.+++..++..
T Consensus       152 ILaTte~~KLl~TI~S--Rcq-~ieF~~-L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS--~GslR~AlslLek  222 (725)
T PRK07133        152 ILATTEVHKIPLTILS--RVQ-RFNFRR-ISEDEIVSRLEFILEKENISYEKNALKLIAKLS--SGSLRDALSIAEQ  222 (725)
T ss_pred             EEEcCChhhhhHHHHh--hce-eEEccC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCCHHHHHHHHHH
Confidence            8888889999999999  985 677775 678888888887776655443322 55566554  2233444444443

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.50  E-value=5.1e-13  Score=138.48  Aligned_cols=185  Identities=19%  Similarity=0.234  Sum_probs=124.9

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC--------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM--------------------  260 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~--------------------  260 (478)
                      +.+.+|++++|++.+++.|...+..     +..++++||+||+|+|||++|+++|+.+.+                    
T Consensus        10 yRP~~F~dIIGQe~iv~~L~~aI~~-----~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~   84 (605)
T PRK05896         10 YRPHNFKQIIGQELIKKILVNAILN-----NKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINT   84 (605)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc-----CCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHc
Confidence            4466899999999999988876542     333677999999999999999999998753                    


Q ss_pred             ----cEEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          261 ----NFLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       261 ----~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                          .++.++++.      ......++.+...+..    ....|++|||+|.+.             ....+.|+..++.
T Consensus        85 ~~h~DiieIdaas------~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt-------------~~A~NaLLKtLEE  145 (605)
T PRK05896         85 NQSVDIVELDAAS------NNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLS-------------TSAWNALLKTLEE  145 (605)
T ss_pred             CCCCceEEecccc------ccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCC-------------HHHHHHHHHHHHh
Confidence                122222211      1123345555554432    234699999999986             2356788888885


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di  411 (478)
                        +...+++|.+|+.++.+.+.+++  |+. .+.+.. ++.++...+++..+.+.++.-+ ..+..++..+ +| +.++.
T Consensus       146 --Pp~~tvfIL~Tt~~~KLl~TI~S--Rcq-~ieF~~-Ls~~eL~~~L~~il~kegi~Is~eal~~La~lS-~G-dlR~A  217 (605)
T PRK05896        146 --PPKHVVFIFATTEFQKIPLTIIS--RCQ-RYNFKK-LNNSELQELLKSIAKKEKIKIEDNAIDKIADLA-DG-SLRDG  217 (605)
T ss_pred             --CCCcEEEEEECCChHhhhHHHHh--hhh-hcccCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CC-cHHHH
Confidence              34567788888889999999998  885 677765 6788888888887766543222 2255555554 32 34444


Q ss_pred             HHHHHH
Q psy450          412 YSICSN  417 (478)
Q Consensus       412 ~~l~~~  417 (478)
                      .+.+..
T Consensus       218 lnlLek  223 (605)
T PRK05896        218 LSILDQ  223 (605)
T ss_pred             HHHHHH
Confidence            444443

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.50  E-value=2.3e-12  Score=120.93  Aligned_cols=204  Identities=15%  Similarity=0.157  Sum_probs=123.4

Q ss_pred             CCCCCCCCCcccccC--cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhh
Q psy450          197 DAPSVPNVSWEDIGG--LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELL  271 (478)
Q Consensus       197 ~~~~~~~~~~~~i~g--~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~  271 (478)
                      ..+..++.+|+++.+  .......+.....+     .....+++|+||+|||||++|+++++..   +.+++++++.++.
T Consensus         8 ~~~~~~~~~~d~f~~~~~~~~~~~l~~~~~~-----~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~   82 (227)
T PRK08903          8 DLGPPPPPTFDNFVAGENAELVARLRELAAG-----PVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPL   82 (227)
T ss_pred             CCCCCChhhhcccccCCcHHHHHHHHHHHhc-----cCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhH
Confidence            345566778888763  34455555444331     1225679999999999999999999876   6688888887653


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC--
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD--  349 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~--  349 (478)
                      ..            +..  .....+|+|||+|.+.+..          ...+..++...   ......++|.+++.+.  
T Consensus        83 ~~------------~~~--~~~~~~liiDdi~~l~~~~----------~~~L~~~~~~~---~~~~~~~vl~~~~~~~~~  135 (227)
T PRK08903         83 LA------------FDF--DPEAELYAVDDVERLDDAQ----------QIALFNLFNRV---RAHGQGALLVAGPAAPLA  135 (227)
T ss_pred             HH------------Hhh--cccCCEEEEeChhhcCchH----------HHHHHHHHHHH---HHcCCcEEEEeCCCCHHh
Confidence            21            111  1234699999999875311          22233333332   2334433444544331  


Q ss_pred             -CCCccccCCCCC--CeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Q psy450          350 -LLDPAILRPGRL--DKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADIYSICSNAWTRAIRR  425 (478)
Q Consensus       350 -~ld~~l~~~~Rf--~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r  425 (478)
                       .+.+.+.+  ||  ...+.++. ++.+++..+++......++.-+. -++.|+..+  .-+.+++..+++.-...+...
T Consensus       136 ~~l~~~L~s--r~~~~~~i~l~p-l~~~~~~~~l~~~~~~~~v~l~~~al~~L~~~~--~gn~~~l~~~l~~l~~~~~~~  210 (227)
T PRK08903        136 LPLREDLRT--RLGWGLVYELKP-LSDADKIAALKAAAAERGLQLADEVPDYLLTHF--RRDMPSLMALLDALDRYSLEQ  210 (227)
T ss_pred             CCCCHHHHH--HHhcCeEEEecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhc--cCCHHHHHHHHHHHHHHHHHh
Confidence             34566776  77  46778875 67777888887766554443222 266677755  235567777776643323222


Q ss_pred             HHhcCCCCCCCCccccHHHHHhc
Q psy450          426 IITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       426 ~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                                 ...||...++++
T Consensus       211 -----------~~~i~~~~~~~~  222 (227)
T PRK08903        211 -----------KRPVTLPLLREM  222 (227)
T ss_pred             -----------CCCCCHHHHHHH
Confidence                       346888888887

>PRK08727 hypothetical protein; Validated

Probab=99.50  E-value=1.9e-12  Score=121.70  Aligned_cols=206  Identities=17%  Similarity=0.191  Sum_probs=119.3

Q ss_pred             CCCCCCCCcccccCcHH-HHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh
Q psy450          198 APSVPNVSWEDIGGLSK-LKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK  273 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~-~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~  273 (478)
                      ....+..+|+++++... ....+....    .  +.....++|+||+|||||++++++++.+   +..+.+++..++.. 
T Consensus        10 ~~~~~~~~f~~f~~~~~n~~~~~~~~~----~--~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~~-   82 (233)
T PRK08727         10 LRYPSDQRFDSYIAAPDGLLAQLQALA----A--GQSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAAG-   82 (233)
T ss_pred             CCCCCcCChhhccCCcHHHHHHHHHHH----h--ccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhhh-
Confidence            44456778888765443 222222211    1  2224559999999999999999997765   56677777655332 


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcC-CCCC--
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN-RVDL--  350 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn-~~~~--  350 (478)
                             .+...++...  +..+|+|||++.+..+..        ....+..++....   ..+ ..||.|+| .|..  
T Consensus        83 -------~~~~~~~~l~--~~dlLiIDDi~~l~~~~~--------~~~~lf~l~n~~~---~~~-~~vI~ts~~~p~~l~  141 (233)
T PRK08727         83 -------RLRDALEALE--GRSLVALDGLESIAGQRE--------DEVALFDFHNRAR---AAG-ITLLYTARQMPDGLA  141 (233)
T ss_pred             -------hHHHHHHHHh--cCCEEEEeCcccccCChH--------HHHHHHHHHHHHH---HcC-CeEEEECCCChhhhh
Confidence                   2233444443  336999999998874321        1122333443332   222 33555555 5544  


Q ss_pred             -CCccccCCCCCCe--EEEeCCCCCHHHHHHHHHHHHhc--CCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Q psy450          351 -LDPAILRPGRLDK--SLYVGLYEDRISQLGVLKAVVRK--FKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR  425 (478)
Q Consensus       351 -ld~~l~~~~Rf~~--~i~~~~pp~~~~r~~il~~~~~~--~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r  425 (478)
                       +++.+++  ||..  .+.++ ||+.+++..|++.+...  +.++.++ ++.|+.++.  -..+.+.+++......+...
T Consensus       142 ~~~~dL~S--Rl~~~~~~~l~-~~~~e~~~~iL~~~a~~~~l~l~~e~-~~~La~~~~--rd~r~~l~~L~~l~~~~~~~  215 (233)
T PRK08727        142 LVLPDLRS--RLAQCIRIGLP-VLDDVARAAVLRERAQRRGLALDEAA-IDWLLTHGE--RELAGLVALLDRLDRESLAA  215 (233)
T ss_pred             hhhHHHHH--HHhcCceEEec-CCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHhCC--CCHHHHHHHHHHHHHHHHHh
Confidence             4789998  8754  45555 47999999999976654  3444333 777777762  12223333344333222221


Q ss_pred             HHhcCCCCCCCCccccHHHHHhc
Q psy450          426 IITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       426 ~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                                 ...||.+.+++.
T Consensus       216 -----------~~~it~~~~~~~  227 (233)
T PRK08727        216 -----------KRRVTVPFLRRV  227 (233)
T ss_pred             -----------CCCCCHHHHHHH
Confidence                       235888888877

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.48  E-value=7.7e-13  Score=139.56  Aligned_cols=172  Identities=16%  Similarity=0.218  Sum_probs=122.0

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++++|++++++.|...+..     +..++.+||+||+|+|||++|+++++.+.+.                   
T Consensus        10 ~RP~~f~~iiGq~~v~~~L~~~i~~-----~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~   84 (576)
T PRK14965         10 YRPQTFSDLTGQEHVSRTLQNAIDT-----GRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITE   84 (576)
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHc-----CCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhc
Confidence            4457899999999999999887653     3337778999999999999999999998642                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           ++.+++..      ......++++...+..    ....|++|||+|.+.             ....+.|++.++.
T Consensus        85 g~~~d~~eid~~s------~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt-------------~~a~naLLk~LEe  145 (576)
T PRK14965         85 GRSVDVFEIDGAS------NTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLS-------------TNAFNALLKTLEE  145 (576)
T ss_pred             CCCCCeeeeeccC------ccCHHHHHHHHHHHHhccccCCceEEEEEChhhCC-------------HHHHHHHHHHHHc
Confidence                 23333211      1223445666655432    234699999999986             3467889999985


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhc
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHF  402 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~  402 (478)
                        ....+++|.+|+.++.+.+.+++  |+. .+.|.. ++.++....++..+++.++.-+ ..+..++...
T Consensus       146 --pp~~~~fIl~t~~~~kl~~tI~S--Rc~-~~~f~~-l~~~~i~~~L~~i~~~egi~i~~~al~~la~~a  210 (576)
T PRK14965        146 --PPPHVKFIFATTEPHKVPITILS--RCQ-RFDFRR-IPLQKIVDRLRYIADQEGISISDAALALVARKG  210 (576)
T ss_pred             --CCCCeEEEEEeCChhhhhHHHHH--hhh-hhhcCC-CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHc
Confidence              34567888888899999999998  874 666764 5777777788777766554322 2255555554

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.47  E-value=1.6e-12  Score=136.10  Aligned_cols=185  Identities=18%  Similarity=0.232  Sum_probs=126.9

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++++|++.+++.|...+..     +..++.+||+||+|+|||++|+++|+.+.+.                   
T Consensus        10 yRP~~f~diiGqe~iv~~L~~~i~~-----~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~   84 (563)
T PRK06647         10 RRPRDFNSLEGQDFVVETLKHSIES-----NKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDN   84 (563)
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHc-----CCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHc
Confidence            4456899999999999998887753     3336779999999999999999999988642                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           ++.+++..      ......++++.+.+.    .....|++|||+|.+.             ....+.|++.++.
T Consensus        85 ~~~~dv~~idgas------~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls-------------~~a~naLLK~LEe  145 (563)
T PRK06647         85 DNSLDVIEIDGAS------NTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLS-------------NSAFNALLKTIEE  145 (563)
T ss_pred             CCCCCeEEecCcc------cCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcC-------------HHHHHHHHHhhcc
Confidence                 22222110      012334555543332    3445799999999986             3467888988884


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di  411 (478)
                        ....+++|++|+.+..+.+++++  |+. .+.|.. ++.++...+++..++..++.-+ ..+..++... +| +.+++
T Consensus       146 --pp~~~vfI~~tte~~kL~~tI~S--Rc~-~~~f~~-l~~~el~~~L~~i~~~egi~id~eAl~lLa~~s-~G-dlR~a  217 (563)
T PRK06647        146 --PPPYIVFIFATTEVHKLPATIKS--RCQ-HFNFRL-LSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKS-TG-SVRDA  217 (563)
T ss_pred             --CCCCEEEEEecCChHHhHHHHHH--hce-EEEecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CC-CHHHH
Confidence              44567788888888899999998  885 567775 5778888888877765554422 2255566654 33 44455


Q ss_pred             HHHHHH
Q psy450          412 YSICSN  417 (478)
Q Consensus       412 ~~l~~~  417 (478)
                      .+++..
T Consensus       218 lslLdk  223 (563)
T PRK06647        218 YTLFDQ  223 (563)
T ss_pred             HHHHHH
Confidence            554443

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.46  E-value=1.1e-12  Score=132.88  Aligned_cols=213  Identities=17%  Similarity=0.160  Sum_probs=130.3

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEE----------Eechh-
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLA----------VKGPE-  269 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~----------v~~~~-  269 (478)
                      +.+.+|++++|++.+++.|...+..     +..++++||+||||+|||++|+++|+.+.+.-..          -.|.. 
T Consensus        10 ~RP~~~~eiiGq~~~~~~L~~~~~~-----~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c   84 (397)
T PRK14955         10 YRPKKFADITAQEHITRTIQNSLRM-----GRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGEC   84 (397)
T ss_pred             cCCCcHhhccChHHHHHHHHHHHHh-----CCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCC
Confidence            4567899999999999988876652     3336779999999999999999999998663100          00100 


Q ss_pred             -----hhh-------hhhc---chHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhh
Q psy450          270 -----LLN-------KYIG---QSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEM  330 (478)
Q Consensus       270 -----l~~-------~~~g---~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l  330 (478)
                           +..       .+.+   .....++++.+.+.    .....|++|||+|.+.             ....+.|++.+
T Consensus        85 ~~c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~-------------~~~~~~LLk~L  151 (397)
T PRK14955         85 ESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLS-------------IAAFNAFLKTL  151 (397)
T ss_pred             HHHHHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCC-------------HHHHHHHHHHH
Confidence                 000       0011   11344555554442    2234699999999986             23456788888


Q ss_pred             cCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHH
Q psy450          331 DGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGA  409 (478)
Q Consensus       331 ~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~  409 (478)
                      +.  .....++|.+|+.+..+.+.+++  |+. .+.+.. ++.++...+++..++..++.-+ ..+..++..+  |-+.+
T Consensus       152 Ee--p~~~t~~Il~t~~~~kl~~tl~s--R~~-~v~f~~-l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~~s--~g~lr  223 (397)
T PRK14955        152 EE--PPPHAIFIFATTELHKIPATIAS--RCQ-RFNFKR-IPLEEIQQQLQGICEAEGISVDADALQLIGRKA--QGSMR  223 (397)
T ss_pred             hc--CCCCeEEEEEeCChHHhHHHHHH--HHH-HhhcCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCCHH
Confidence            74  33455666666777888888887  774 566764 6777877788877765543222 2255666654  22333


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          410 DIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       410 di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      .+.+.+..+...+-.         ......||.+++.+.
T Consensus       224 ~a~~~L~kl~~~~~~---------~~~~~~It~~~v~~~  253 (397)
T PRK14955        224 DAQSILDQVIAFSVE---------SEGEGSIRYDKVAEL  253 (397)
T ss_pred             HHHHHHHHHHHhccc---------cCCCCccCHHHHHHH
Confidence            444444433322100         012335777777665

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.46  E-value=1.6e-12  Score=133.95  Aligned_cols=192  Identities=18%  Similarity=0.170  Sum_probs=124.2

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------EE-EEechhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------FL-AVKGPELLN  272 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------~~-~v~~~~l~~  272 (478)
                      +.+.+|++++|++.+++.|...+..     +..++.+||+||+|+|||++|+.+|+.+++.       .- ..+|..+..
T Consensus        10 yRP~~f~diiGq~~i~~~L~~~i~~-----~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~   84 (486)
T PRK14953         10 YRPKFFKEVIGQEIVVRILKNAVKL-----QRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDK   84 (486)
T ss_pred             hCCCcHHHccChHHHHHHHHHHHHc-----CCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhc
Confidence            4566899999999999988877643     2235668999999999999999999988641       00 001111100


Q ss_pred             ----------hhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCC
Q psy450          273 ----------KYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD  338 (478)
Q Consensus       273 ----------~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  338 (478)
                                .........++.+.+.+.    ...+.|++|||+|.+.             ....+.|+..++..  ...
T Consensus        85 g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt-------------~~a~naLLk~LEep--p~~  149 (486)
T PRK14953         85 GSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLT-------------KEAFNALLKTLEEP--PPR  149 (486)
T ss_pred             CCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcC-------------HHHHHHHHHHHhcC--CCC
Confidence                      000112233455544443    2345799999999886             34567888888753  345


Q ss_pred             eEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC-HHHHHHhcCCCCCHHHHHHHHHH
Q psy450          339 VFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS-LDSLVHHFPSQMSGADIYSICSN  417 (478)
Q Consensus       339 v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~-~~~la~~~~~~~sg~di~~l~~~  417 (478)
                      +++|.+|+.++.+.+++++  |+. .+.+.. ++.++...+++.+++..++..+.+ +..++..+ + -+.+++.+.+..
T Consensus       150 ~v~Il~tt~~~kl~~tI~S--Rc~-~i~f~~-ls~~el~~~L~~i~k~egi~id~~al~~La~~s-~-G~lr~al~~Ldk  223 (486)
T PRK14953        150 TIFILCTTEYDKIPPTILS--RCQ-RFIFSK-PTKEQIKEYLKRICNEEKIEYEEKALDLLAQAS-E-GGMRDAASLLDQ  223 (486)
T ss_pred             eEEEEEECCHHHHHHHHHH--hce-EEEcCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-C-CCHHHHHHHHHH
Confidence            5666667778888889988  875 677764 788888899998887766543322 45555554 2 233444444444


Q ss_pred             H
Q psy450          418 A  418 (478)
Q Consensus       418 a  418 (478)
                      +
T Consensus       224 l  224 (486)
T PRK14953        224 A  224 (486)
T ss_pred             H
Confidence            3

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.46  E-value=2.3e-12  Score=123.27  Aligned_cols=133  Identities=23%  Similarity=0.354  Sum_probs=90.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEech------hhhhhhhcchHHHH-HH-------------------HHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGP------ELLNKYIGQSEENI-RN-------------------VFL  287 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~------~l~~~~~g~~~~~~-~~-------------------~~~  287 (478)
                      ..+++|+||||||||++|+++|+.+|.+++.+++.      ++.+.+.+.....+ ..                   .+.
T Consensus        21 g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~l~  100 (262)
T TIGR02640        21 GYPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDIVRQNWVDNRLT  100 (262)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcccceeecCchHH
Confidence            45699999999999999999999999999999764      33333322211111 11                   111


Q ss_pred             HhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC--------------CCCCeEEEEEcCCCC----
Q psy450          288 KARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH--------------TSQDVFILGATNRVD----  349 (478)
Q Consensus       288 ~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------------~~~~v~vI~ttn~~~----  349 (478)
                      .|.. .+.+++|||++.+.+             .+.+.|+..++.-.              ..+++.||+|+|...    
T Consensus       101 ~A~~-~g~~lllDEi~r~~~-------------~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~~~~g~  166 (262)
T TIGR02640       101 LAVR-EGFTLVYDEFTRSKP-------------ETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPVEYAGV  166 (262)
T ss_pred             HHHH-cCCEEEEcchhhCCH-------------HHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCccccce
Confidence            2222 235999999999763             34555555554211              123678999999762    


Q ss_pred             -CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          350 -LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       350 -~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                       .+++++++  || ..++++. |+.++..+|++..+
T Consensus       167 ~~l~~aL~~--R~-~~i~i~~-P~~~~e~~Il~~~~  198 (262)
T TIGR02640       167 HETQDALLD--RL-ITIFMDY-PDIDTETAILRAKT  198 (262)
T ss_pred             ecccHHHHh--hc-EEEECCC-CCHHHHHHHHHHhh
Confidence             46888998  98 6788887 68888888988764

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).

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.46  E-value=2.7e-12  Score=132.35  Aligned_cols=187  Identities=18%  Similarity=0.202  Sum_probs=128.0

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC--------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM--------------------  260 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~--------------------  260 (478)
                      +.+.+|++++|++.+++.|...+..     +..++.+||+||+|+|||++|+++++.+.+                    
T Consensus         8 yRP~~fdeiiGqe~v~~~L~~~I~~-----grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~   82 (535)
T PRK08451          8 YRPKHFDELIGQESVSKTLSLALDN-----NRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALE   82 (535)
T ss_pred             HCCCCHHHccCcHHHHHHHHHHHHc-----CCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhh
Confidence            4457899999999999999887642     333677899999999999999999998732                    


Q ss_pred             ----cEEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          261 ----NFLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       261 ----~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                          .++.++.+.      ...-..++++......    ....|++|||+|.+.             ....+.|++.++.
T Consensus        83 ~~h~dv~eldaas------~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt-------------~~A~NALLK~LEE  143 (535)
T PRK08451         83 NRHIDIIEMDAAS------NRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLT-------------KEAFNALLKTLEE  143 (535)
T ss_pred             cCCCeEEEecccc------ccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCC-------------HHHHHHHHHHHhh
Confidence                122222211      0123456666554321    234699999999996             3567889999986


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di  411 (478)
                      .  ...+.+|.+|+.+..+.+++++  |+ ..+.|.. ++.++....++..++..++.-+ ..+..++...  +-+.+++
T Consensus       144 p--p~~t~FIL~ttd~~kL~~tI~S--Rc-~~~~F~~-Ls~~ei~~~L~~Il~~EGi~i~~~Al~~Ia~~s--~GdlR~a  215 (535)
T PRK08451        144 P--PSYVKFILATTDPLKLPATILS--RT-QHFRFKQ-IPQNSIISHLKTILEKEGVSYEPEALEILARSG--NGSLRDT  215 (535)
T ss_pred             c--CCceEEEEEECChhhCchHHHh--hc-eeEEcCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCcHHHH
Confidence            4  4456677777888999999999  86 5777775 6788888888877776554432 2255566554  3355555


Q ss_pred             HHHHHHHH
Q psy450          412 YSICSNAW  419 (478)
Q Consensus       412 ~~l~~~a~  419 (478)
                      .+++..+.
T Consensus       216 lnlLdqai  223 (535)
T PRK08451        216 LTLLDQAI  223 (535)
T ss_pred             HHHHHHHH
Confidence            55555544

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.46  E-value=2.8e-12  Score=129.14  Aligned_cols=174  Identities=19%  Similarity=0.231  Sum_probs=118.6

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcE----------EEEechhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNF----------LAVKGPEL  270 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~----------~~v~~~~l  270 (478)
                      +.+.+|++++|++.+++.+...+..     +..++++|||||||+|||++|+++++.+..+.          ..+...  
T Consensus        11 ~rP~~~~~iig~~~~~~~l~~~i~~-----~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~--   83 (367)
T PRK14970         11 YRPQTFDDVVGQSHITNTLLNAIEN-----NHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELD--   83 (367)
T ss_pred             HCCCcHHhcCCcHHHHHHHHHHHHc-----CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEec--
Confidence            4567899999999999888877653     33367899999999999999999999885421          111110  


Q ss_pred             hhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcC
Q psy450          271 LNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN  346 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn  346 (478)
                        .........++.++..+..    ..+.|++|||+|.+..             ..++.++..++.  .....++|.+++
T Consensus        84 --~~~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~-------------~~~~~ll~~le~--~~~~~~~Il~~~  146 (367)
T PRK14970         84 --AASNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSS-------------AAFNAFLKTLEE--PPAHAIFILATT  146 (367)
T ss_pred             --cccCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcCH-------------HHHHHHHHHHhC--CCCceEEEEEeC
Confidence              0011223456666665532    3356999999998862             346777777765  233456666777


Q ss_pred             CCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhc
Q psy450          347 RVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHF  402 (478)
Q Consensus       347 ~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~  402 (478)
                      .+..+.+++.+  |+. .+.++. ++.++...++...+++.++. ++..+..++..+
T Consensus       147 ~~~kl~~~l~s--r~~-~v~~~~-~~~~~l~~~l~~~~~~~g~~i~~~al~~l~~~~  199 (367)
T PRK14970        147 EKHKIIPTILS--RCQ-IFDFKR-ITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKA  199 (367)
T ss_pred             CcccCCHHHHh--cce-eEecCC-ccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhC
Confidence            78888889988  774 567765 67888888888777665543 223366666654

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.45  E-value=3.3e-12  Score=134.34  Aligned_cols=192  Identities=18%  Similarity=0.188  Sum_probs=130.0

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe-------c------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK-------G------  267 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~-------~------  267 (478)
                      +.+.+|++++|++.+++.|...+.     .+..++++||+||+|+|||++|+++|+.+.+.....+       |      
T Consensus        18 yRP~~f~dliGq~~~v~~L~~~~~-----~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C   92 (598)
T PRK09111         18 YRPQTFDDLIGQEAMVRTLTNAFE-----TGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHC   92 (598)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHH-----cCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHH
Confidence            445789999999999999988765     2344778999999999999999999999865421111       0      


Q ss_pred             hhhhhh----------hhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC
Q psy450          268 PELLNK----------YIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV  333 (478)
Q Consensus       268 ~~l~~~----------~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~  333 (478)
                      ..+...          ........++.+++.+..    ....|++|||+|.+.             ....+.|++.++..
T Consensus        93 ~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls-------------~~a~naLLKtLEeP  159 (598)
T PRK09111         93 QAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLS-------------TAAFNALLKTLEEP  159 (598)
T ss_pred             HHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCC-------------HHHHHHHHHHHHhC
Confidence            000000          001123456666665542    235799999999996             34578889888853


Q ss_pred             CCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHH
Q psy450          334 HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIY  412 (478)
Q Consensus       334 ~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~  412 (478)
                        ...+++|.+|+.++.+.+.+++  |+ ..+.|.. ++.++...+++..+++.++.-+ ..+..++..+  +-+.+++.
T Consensus       160 --p~~~~fIl~tte~~kll~tI~S--Rc-q~~~f~~-l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a--~Gdlr~al  231 (598)
T PRK09111        160 --PPHVKFIFATTEIRKVPVTVLS--RC-QRFDLRR-IEADVLAAHLSRIAAKEGVEVEDEALALIARAA--EGSVRDGL  231 (598)
T ss_pred             --CCCeEEEEEeCChhhhhHHHHh--he-eEEEecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCCHHHHH
Confidence              4456777777888888888998  88 4677875 6788888888888776655433 2245556554  33455555


Q ss_pred             HHHHHH
Q psy450          413 SICSNA  418 (478)
Q Consensus       413 ~l~~~a  418 (478)
                      +.+..+
T Consensus       232 ~~Ldkl  237 (598)
T PRK09111        232 SLLDQA  237 (598)
T ss_pred             HHHHHH
Confidence            555443

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.45  E-value=3.1e-12  Score=131.11  Aligned_cols=172  Identities=19%  Similarity=0.235  Sum_probs=119.0

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+.+|++++|++.+++.|...+..     +..++.+||+||+|+|||++|+++|+.+.+.                   
T Consensus        11 yRP~~~~diiGq~~~v~~L~~~i~~-----~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~   85 (451)
T PRK06305         11 YRPQTFSEILGQDAVVAVLKNALRF-----NRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEIS   85 (451)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc-----CCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHh
Confidence            3457899999999999988877653     3336779999999999999999999987542                   


Q ss_pred             ------EEEEechhhhhhhhcchHHHHHHHHHHh----HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhc
Q psy450          262 ------FLAVKGPELLNKYIGQSEENIRNVFLKA----RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMD  331 (478)
Q Consensus       262 ------~~~v~~~~l~~~~~g~~~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~  331 (478)
                            ++.+++...      ..-..++.+.+..    ....+.|++|||+|.+.             ....+.|++.++
T Consensus        86 ~~~~~d~~~i~g~~~------~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt-------------~~~~n~LLk~lE  146 (451)
T PRK06305         86 SGTSLDVLEIDGASH------RGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLT-------------KEAFNSLLKTLE  146 (451)
T ss_pred             cCCCCceEEeecccc------CCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhC-------------HHHHHHHHHHhh
Confidence                  223322110      0112333333222    22456799999999986             235678888888


Q ss_pred             CCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhc
Q psy450          332 GVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHF  402 (478)
Q Consensus       332 ~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~  402 (478)
                      ..  ...+++|++|+.+..+.+.+++  |+. .+.+.. ++.++...+++..+++.++.-+ ..+..++..+
T Consensus       147 ep--~~~~~~Il~t~~~~kl~~tI~s--Rc~-~v~f~~-l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~s  212 (451)
T PRK06305        147 EP--PQHVKFFLATTEIHKIPGTILS--RCQ-KMHLKR-IPEETIIDKLALIAKQEGIETSREALLPIARAA  212 (451)
T ss_pred             cC--CCCceEEEEeCChHhcchHHHH--hce-EEeCCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Confidence            63  3467777788888899999998  884 677775 6788888888887766554322 2255666654

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

Probab=99.44  E-value=2.1e-12  Score=138.43  Aligned_cols=203  Identities=18%  Similarity=0.265  Sum_probs=125.2

Q ss_pred             CCCCCcccccCcHHHHHH---HHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcc
Q psy450          201 VPNVSWEDIGGLSKLKAE---ILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQ  277 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~---l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~  277 (478)
                      +.+.++++++|++.+...   +...+..      ....+++|+||||||||++|+++++..+.+++.+++...       
T Consensus        22 ~RP~tldd~vGQe~ii~~~~~L~~~i~~------~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~-------   88 (725)
T PRK13341         22 LRPRTLEEFVGQDHILGEGRLLRRAIKA------DRVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLA-------   88 (725)
T ss_pred             cCCCcHHHhcCcHHHhhhhHHHHHHHhc------CCCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhh-------
Confidence            345789999999998853   4443321      124579999999999999999999999999988886421       


Q ss_pred             hHHHHHHHHHHhH-----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCC-C-CC
Q psy450          278 SEENIRNVFLKAR-----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNR-V-DL  350 (478)
Q Consensus       278 ~~~~~~~~~~~a~-----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~-~-~~  350 (478)
                      ....++..+..+.     .....+|||||+|.+..             ...+.|+..++    ...+++|++|+. | ..
T Consensus        89 ~i~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~-------------~qQdaLL~~lE----~g~IiLI~aTTenp~~~  151 (725)
T PRK13341         89 GVKDLRAEVDRAKERLERHGKRTILFIDEVHRFNK-------------AQQDALLPWVE----NGTITLIGATTENPYFE  151 (725)
T ss_pred             hhHHHHHHHHHHHHHhhhcCCceEEEEeChhhCCH-------------HHHHHHHHHhc----CceEEEEEecCCChHhh
Confidence            1112233333321     13457999999999862             23445555554    245667765543 3 45


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc---------CCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK---------FKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTR  421 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~---------~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~  421 (478)
                      +++++++  |+ ..+.++. ++.+++..+++..+..         +.++++ .+..|+... .| +.+.+.++++.++..
T Consensus       152 l~~aL~S--R~-~v~~l~p-Ls~edi~~IL~~~l~~~~~~~g~~~v~I~de-aL~~La~~s-~G-D~R~lln~Le~a~~~  224 (725)
T PRK13341        152 VNKALVS--RS-RLFRLKS-LSDEDLHQLLKRALQDKERGYGDRKVDLEPE-AEKHLVDVA-NG-DARSLLNALELAVES  224 (725)
T ss_pred             hhhHhhc--cc-cceecCC-CCHHHHHHHHHHHHHHHHhhcCCcccCCCHH-HHHHHHHhC-CC-CHHHHHHHHHHHHHh
Confidence            7889998  75 4567764 7889999999887762         122222 256666654 22 334444555544421


Q ss_pred             HHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          422 AIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       422 a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      +..        .......||.+++.++
T Consensus       225 ~~~--------~~~~~i~It~~~~~e~  243 (725)
T PRK13341        225 TPP--------DEDGLIDITLAIAEES  243 (725)
T ss_pred             ccc--------CCCCceeccHHHHHHH
Confidence            100        0111234777777777

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

Probab=99.44  E-value=1.1e-12  Score=133.42  Aligned_cols=193  Identities=19%  Similarity=0.204  Sum_probs=135.8

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcE--EEEechhh------h-
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNF--LAVKGPEL------L-  271 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~--~~v~~~~l------~-  271 (478)
                      +.+..|++++|++.+...|...+..-.     -..++||.||.|||||++||.+|+.+++.-  ..-.|.+.      . 
T Consensus        10 yRP~~F~evvGQe~v~~~L~nal~~~r-----i~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~   84 (515)
T COG2812          10 YRPKTFDDVVGQEHVVKTLSNALENGR-----IAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINE   84 (515)
T ss_pred             hCcccHHHhcccHHHHHHHHHHHHhCc-----chhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhc
Confidence            345679999999999999998876432     266799999999999999999999987642  11111111      0 


Q ss_pred             ---------hhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCC
Q psy450          272 ---------NKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD  338 (478)
Q Consensus       272 ---------~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  338 (478)
                               .......-..+|.+.+.+.    ..++.|.+|||+|.|.             ...++.||+.++.  +...
T Consensus        85 g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS-------------~~afNALLKTLEE--PP~h  149 (515)
T COG2812          85 GSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLS-------------KQAFNALLKTLEE--PPSH  149 (515)
T ss_pred             CCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhh-------------HHHHHHHhccccc--CccC
Confidence                     0112334455667766653    3456799999999997             4678999999984  5668


Q ss_pred             eEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC-HHHHHHhcCCCCCHHHHHHHHHH
Q psy450          339 VFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS-LDSLVHHFPSQMSGADIYSICSN  417 (478)
Q Consensus       339 v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~-~~~la~~~~~~~sg~di~~l~~~  417 (478)
                      |++|.+|..|+.+++.+++  |+.+ +.+.. -+.++....+...+.+.++..+.+ +.-+++.. +| +.+|...++..
T Consensus       150 V~FIlATTe~~Kip~TIlS--Rcq~-f~fkr-i~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a-~G-s~RDalslLDq  223 (515)
T COG2812         150 VKFILATTEPQKIPNTILS--RCQR-FDFKR-LDLEEIAKHLAAILDKEGINIEEDALSLIARAA-EG-SLRDALSLLDQ  223 (515)
T ss_pred             eEEEEecCCcCcCchhhhh--cccc-ccccC-CCHHHHHHHHHHHHHhcCCccCHHHHHHHHHHc-CC-ChhhHHHHHHH
Confidence            9999999999999999999  8854 44443 466777788888888777765544 33344432 33 44566665555


Q ss_pred             HH
Q psy450          418 AW  419 (478)
Q Consensus       418 a~  419 (478)
                      |.
T Consensus       224 ~i  225 (515)
T COG2812         224 AI  225 (515)
T ss_pred             HH
Confidence            54

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.43  E-value=5.3e-12  Score=132.93  Aligned_cols=178  Identities=16%  Similarity=0.178  Sum_probs=118.6

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEE----------Eechh-
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLA----------VKGPE-  269 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~----------v~~~~-  269 (478)
                      +.+.+|++++|++.+++.|+..+..     +.-++++||+||+|||||++|+.+|+.+.+.-..          -.|.. 
T Consensus        10 yRP~~f~eivGQe~i~~~L~~~i~~-----~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C   84 (620)
T PRK14954         10 YRPSKFADITAQEHITHTIQNSLRM-----DRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGEC   84 (620)
T ss_pred             HCCCCHHHhcCcHHHHHHHHHHHHc-----CCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccC
Confidence            4456799999999999998876542     3337779999999999999999999999763100          00100 


Q ss_pred             -----hhh-------hhhc---chHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhh
Q psy450          270 -----LLN-------KYIG---QSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEM  330 (478)
Q Consensus       270 -----l~~-------~~~g---~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l  330 (478)
                           +..       .+.+   .....++.+.+.+.    .....|++|||+|.+.             ....+.|++.+
T Consensus        85 ~sC~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt-------------~~a~naLLK~L  151 (620)
T PRK14954         85 ESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLS-------------TAAFNAFLKTL  151 (620)
T ss_pred             HHHHHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcC-------------HHHHHHHHHHH
Confidence                 000       0011   12345555554442    2344699999999986             24567899998


Q ss_pred             cCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCC-CCCHHHHHHhc
Q psy450          331 DGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSD-DVSLDSLVHHF  402 (478)
Q Consensus       331 ~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~-~~~~~~la~~~  402 (478)
                      +..  ...+++|.+|+.+..+.+.+++  |+ ..+.|.. ++.++...+++..+++.++.- +..+..++..+
T Consensus       152 EeP--p~~tv~IL~t~~~~kLl~TI~S--Rc-~~vef~~-l~~~ei~~~L~~i~~~egi~I~~eal~~La~~s  218 (620)
T PRK14954        152 EEP--PPHAIFIFATTELHKIPATIAS--RC-QRFNFKR-IPLDEIQSQLQMICRAEGIQIDADALQLIARKA  218 (620)
T ss_pred             hCC--CCCeEEEEEeCChhhhhHHHHh--hc-eEEecCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Confidence            853  3446666667777888889988  77 5777765 677887778887776554322 22366666665

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

Probab=99.43  E-value=1e-10  Score=105.60  Aligned_cols=195  Identities=20%  Similarity=0.280  Sum_probs=138.5

Q ss_pred             CCCCHHHHHHHHHHhhhhcccCC-CCCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHH
Q psy450          174 RDLQKEDFQQIYDDLQSRYSDQL-DAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAK  252 (478)
Q Consensus       174 ~~it~~d~~~a~~~~~~~~~~~~-~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~  252 (478)
                      +.....|+..+....-......+ ..+..+.+.+.+|+|.+.+++.|.+....+.  .|.+.+++||||..|||||++++
T Consensus        26 ~~~~~~Dw~~a~~f~~~~~~~~L~pv~~~~~i~L~~l~Gvd~qk~~L~~NT~~F~--~G~pANnVLLwGaRGtGKSSLVK  103 (287)
T COG2607          26 PAPGAEDWNEALAFRWRPAIGYLEPVPDPDPIDLADLVGVDRQKEALVRNTEQFA--EGLPANNVLLWGARGTGKSSLVK  103 (287)
T ss_pred             CCCCcCchhHhhHHhcccccCcccCCCCCCCcCHHHHhCchHHHHHHHHHHHHHH--cCCcccceEEecCCCCChHHHHH
Confidence            55666777766554433333333 3455566889999999999999988776655  46668899999999999999999


Q ss_pred             HHHHHh---CCcEEEEechhhhhhhhcchHHHHHHHHHHhHhC-CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHH
Q psy450          253 AVATEC---RMNFLAVKGPELLNKYIGQSEENIRNVFLKARSA-APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLA  328 (478)
Q Consensus       253 ~la~~~---~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~  328 (478)
                      |+.+++   +..+++|+..++..         +-.+++..+.. ..-|||+||+--=            ..+.....|-.
T Consensus       104 A~~~e~~~~glrLVEV~k~dl~~---------Lp~l~~~Lr~~~~kFIlFcDDLSFe------------~gd~~yK~LKs  162 (287)
T COG2607         104 ALLNEYADEGLRLVEVDKEDLAT---------LPDLVELLRARPEKFILFCDDLSFE------------EGDDAYKALKS  162 (287)
T ss_pred             HHHHHHHhcCCeEEEEcHHHHhh---------HHHHHHHHhcCCceEEEEecCCCCC------------CCchHHHHHHH
Confidence            998887   56789998877643         23344444432 2469999985221            11334556666


Q ss_pred             hhcCCCC--CCCeEEEEEcCCCCCCCcccc--------------------CCCCCCeEEEeCCCCCHHHHHHHHHHHHhc
Q psy450          329 EMDGVHT--SQDVFILGATNRVDLLDPAIL--------------------RPGRLDKSLYVGLYEDRISQLGVLKAVVRK  386 (478)
Q Consensus       329 ~l~~~~~--~~~v~vI~ttn~~~~ld~~l~--------------------~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~  386 (478)
                      .++|--.  ..+|+|.+|+|+.+.++..+.                    -.-||.-.+.|.. ++.++...|+..++++
T Consensus       163 ~LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~~~~~eih~~eaveEKlSlSDRFGLwL~F~~-~~Q~~YL~~V~~~a~~  241 (287)
T COG2607         163 ALEGGVEGRPANVLFYATSNRRHLLPEDMKDNEGSTGEIHPSEAVEEKLSLSDRFGLWLSFYP-CDQDEYLKIVDHYAKH  241 (287)
T ss_pred             HhcCCcccCCCeEEEEEecCCcccccHhhhhCCCcccccChhHHHHHhhchhhhcceeecccC-CCHHHHHHHHHHHHHH
Confidence            6776433  347999999999766653221                    1239999999974 8999999999999999


Q ss_pred             CCCCCC
Q psy450          387 FKLSDD  392 (478)
Q Consensus       387 ~~~~~~  392 (478)
                      .+++-+
T Consensus       242 ~~l~~~  247 (287)
T COG2607         242 FGLDIS  247 (287)
T ss_pred             cCCCCC
Confidence            887653

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.42  E-value=1.4e-12  Score=127.57  Aligned_cols=162  Identities=22%  Similarity=0.316  Sum_probs=102.5

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC-------Cc--EEEEech----
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR-------MN--FLAVKGP----  268 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~-------~~--~~~v~~~----  268 (478)
                      ....|++++|++.+++.+.-.+..+    +  ..|+||.|+||||||++|+++++.+.       .+  +..+.+.    
T Consensus         3 ~~~~f~~i~Gq~~~~~~l~~~~~~~----~--~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~~~~~~~~   76 (334)
T PRK13407          3 KPFPFSAIVGQEEMKQAMVLTAIDP----G--IGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWA   76 (334)
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHhcc----C--CCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcccCCcccc
Confidence            3567999999999999877543221    1  35799999999999999999999883       21  1111100    


Q ss_pred             -----hhhh-------hhhcchHHHHHH-------------HHHHh--HhCCCeEEEEcCCccccCCCCCCCCCchhHHH
Q psy450          269 -----ELLN-------KYIGQSEENIRN-------------VFLKA--RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDR  321 (478)
Q Consensus       269 -----~l~~-------~~~g~~~~~~~~-------------~~~~a--~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~  321 (478)
                           ++..       .-.+.++..+-.             .|..-  ......+||+||++.+.             ..
T Consensus        77 ~~~~~~~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~~A~~GiL~lDEInrl~-------------~~  143 (334)
T PRK13407         77 HVSSTTMIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYIDEVNLLE-------------DH  143 (334)
T ss_pred             cccCCcccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceEEcCCCeEEecChHhCC-------------HH
Confidence                 0000       000101111100             01100  01122599999999986             34


Q ss_pred             HHHHHHHhhcCCC-----------CCCCeEEEEEcCCCC-CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          322 VVSQLLAEMDGVH-----------TSQDVFILGATNRVD-LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       322 ~~~~ll~~l~~~~-----------~~~~v~vI~ttn~~~-~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                      ++..|+..|+.-.           ...++++++|+|..+ .++++++.  ||...+.++.|.+.++|.+|++...
T Consensus       144 ~q~~Lle~mee~~v~v~r~G~~~~~p~rfiviAt~NP~e~~l~~aLld--RF~~~v~v~~~~~~~e~~~il~~~~  216 (334)
T PRK13407        144 IVDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEGELRPQLLD--RFGLSVEVRSPRDVETRVEVIRRRD  216 (334)
T ss_pred             HHHHHHHHHHcCCeEEEECCeEEecCCCEEEEecCCcccCCCCHHHHh--hcceEEEcCCCCcHHHHHHHHHHhh
Confidence            5666766665321           234688888888654 58889999  9999999988666689999997643

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.42  E-value=9.2e-12  Score=123.03  Aligned_cols=203  Identities=21%  Similarity=0.209  Sum_probs=126.8

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC-----CcEEEEechhhhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR-----MNFLAVKGPELLN  272 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~-----~~~~~v~~~~l~~  272 (478)
                      ...+.+.+|++++|.+.+++.+...+...      ...+++|+||||||||++++++++.+.     ..++.+++++.. 
T Consensus         8 ~~kyrP~~~~~~~g~~~~~~~l~~~i~~~------~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~-   80 (319)
T PRK00440          8 VEKYRPRTLDEIVGQEEIVERLKSYVKEK------NMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDER-   80 (319)
T ss_pred             chhhCCCcHHHhcCcHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEecccccc-
Confidence            34455678999999999999988876431      133589999999999999999999873     234555433211 


Q ss_pred             hhhcchHHHHHHHHHHh-H----h-CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcC
Q psy450          273 KYIGQSEENIRNVFLKA-R----S-AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN  346 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a-~----~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn  346 (478)
                           ....+...+... .    . ..+.+|+|||+|.+..             ...+.|...++...  ....+|.++|
T Consensus        81 -----~~~~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l~~-------------~~~~~L~~~le~~~--~~~~lIl~~~  140 (319)
T PRK00440         81 -----GIDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLTS-------------DAQQALRRTMEMYS--QNTRFILSCN  140 (319)
T ss_pred             -----chHHHHHHHHHHHhcCCCCCCCceEEEEeCcccCCH-------------HHHHHHHHHHhcCC--CCCeEEEEeC
Confidence                 111122222111 1    1 2356999999998852             23345666666433  2345666777


Q ss_pred             CCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCC-CCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Q psy450          347 RVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSD-DVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR  425 (478)
Q Consensus       347 ~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~-~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r  425 (478)
                      .+..+.+++.+  |+. .+.++. ++.++...+++.++++.++.- +..+..++..+ .    +|++.+.+.....+.. 
T Consensus       141 ~~~~l~~~l~s--r~~-~~~~~~-l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~-~----gd~r~~~~~l~~~~~~-  210 (319)
T PRK00440        141 YSSKIIDPIQS--RCA-VFRFSP-LKKEAVAERLRYIAENEGIEITDDALEAIYYVS-E----GDMRKAINALQAAAAT-  210 (319)
T ss_pred             CccccchhHHH--Hhh-eeeeCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-C----CCHHHHHHHHHHHHHc-
Confidence            77777778887  875 477775 678888889988887665432 22366666654 2    3444443333211110 


Q ss_pred             HHhcCCCCCCCCccccHHHHHhc
Q psy450          426 IITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       426 ~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                                 ...||.+++..+
T Consensus       211 -----------~~~it~~~v~~~  222 (319)
T PRK00440        211 -----------GKEVTEEAVYKI  222 (319)
T ss_pred             -----------CCCCCHHHHHHH
Confidence                       135788887777

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.41  E-value=6.9e-12  Score=132.78  Aligned_cols=172  Identities=18%  Similarity=0.210  Sum_probs=120.2

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +...+|++++|++.+++.|...+..-     ..+.++||+||+|+|||++|+++|+.+.+.                   
T Consensus        10 yRP~~f~~liGq~~i~~~L~~~l~~~-----rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i   84 (620)
T PRK14948         10 YRPQRFDELVGQEAIATTLKNALISN-----RIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAI   84 (620)
T ss_pred             hCCCcHhhccChHHHHHHHHHHHHcC-----CCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHH
Confidence            45578999999999999998877642     225679999999999999999999998653                   


Q ss_pred             -------EEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhh
Q psy450          262 -------FLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEM  330 (478)
Q Consensus       262 -------~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l  330 (478)
                             ++.++.      ..+.....+++++..+..    ....|++|||+|.|.             ....+.|++.+
T Consensus        85 ~~g~h~D~~ei~~------~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt-------------~~a~naLLK~L  145 (620)
T PRK14948         85 AAGNALDVIEIDA------ASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLS-------------TAAFNALLKTL  145 (620)
T ss_pred             hcCCCccEEEEec------cccCCHHHHHHHHHHHhhChhcCCceEEEEECccccC-------------HHHHHHHHHHH
Confidence                   112211      112334567777766642    334699999999986             35678899999


Q ss_pred             cCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhc
Q psy450          331 DGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHF  402 (478)
Q Consensus       331 ~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~  402 (478)
                      +.  ....+++|++|++++.+.+.+++  |+ ..+.|.. +..++....++..+++.++.-+ ..+..++..+
T Consensus       146 Ee--Pp~~tvfIL~t~~~~~llpTIrS--Rc-~~~~f~~-l~~~ei~~~L~~ia~kegi~is~~al~~La~~s  212 (620)
T PRK14948        146 EE--PPPRVVFVLATTDPQRVLPTIIS--RC-QRFDFRR-IPLEAMVQHLSEIAEKESIEIEPEALTLVAQRS  212 (620)
T ss_pred             hc--CCcCeEEEEEeCChhhhhHHHHh--he-eEEEecC-CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHc
Confidence            85  34567777788888888899998  88 4566765 4666666666666655443322 2255555554

>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=99.40  E-value=4.9e-12  Score=109.35  Aligned_cols=137  Identities=34%  Similarity=0.503  Sum_probs=89.1

Q ss_pred             CcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhcchHHH---HHH
Q psy450          211 GLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIGQSEEN---IRN  284 (478)
Q Consensus       211 g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g~~~~~---~~~  284 (478)
                      |.+.+...+...+...      ...+++++||||||||++++.+++.+   +.+++.+++.+............   ...
T Consensus         2 ~~~~~~~~i~~~~~~~------~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~   75 (151)
T cd00009           2 GQEEAIEALREALELP------PPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRL   75 (151)
T ss_pred             chHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhhhHhH
Confidence            4445555555444322      25679999999999999999999998   88999999877654332221111   112


Q ss_pred             HHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC----CCCeEEEEEcCCCC--CCCccccCC
Q psy450          285 VFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT----SQDVFILGATNRVD--LLDPAILRP  358 (478)
Q Consensus       285 ~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~----~~~v~vI~ttn~~~--~ld~~l~~~  358 (478)
                      .........+.++++||++.+..             .....++..+.....    ..++.+|+++|...  .+++.+.+ 
T Consensus        76 ~~~~~~~~~~~~lilDe~~~~~~-------------~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~~~~~~-  141 (151)
T cd00009          76 LFELAEKAKPGVLFIDEIDSLSR-------------GAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYD-  141 (151)
T ss_pred             HHHhhccCCCeEEEEeChhhhhH-------------HHHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcChhHHh-
Confidence            22333455678999999998731             122333333333322    35788899998876  67778887 


Q ss_pred             CCCCeEEEeC
Q psy450          359 GRLDKSLYVG  368 (478)
Q Consensus       359 ~Rf~~~i~~~  368 (478)
                       ||+..+.++
T Consensus       142 -r~~~~i~~~  150 (151)
T cd00009         142 -RLDIRIVIP  150 (151)
T ss_pred             -hhccEeecC
Confidence             998777664

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.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.35  E-value=2.5e-11  Score=128.82  Aligned_cols=184  Identities=16%  Similarity=0.220  Sum_probs=121.8

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcE------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNF------------------  262 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~------------------  262 (478)
                      +.+.+|++++|++.+++.|...+..     +..++.+||+||+|+|||++|+.+|+.+.+..                  
T Consensus        10 yRP~~~~eiiGq~~~~~~L~~~i~~-----~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~   84 (585)
T PRK14950         10 WRSQTFAELVGQEHVVQTLRNAIAE-----GRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIA   84 (585)
T ss_pred             hCCCCHHHhcCCHHHHHHHHHHHHh-----CCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHh
Confidence            4567899999999999998877653     22366789999999999999999999885422                  


Q ss_pred             -------EEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhc
Q psy450          263 -------LAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMD  331 (478)
Q Consensus       263 -------~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~  331 (478)
                             +.++..      .......++++.+.+..    ....|++|||+|.|.             ....+.|++.++
T Consensus        85 ~~~~~d~~~i~~~------~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~-------------~~a~naLLk~LE  145 (585)
T PRK14950         85 EGSAVDVIEMDAA------SHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLS-------------TAAFNALLKTLE  145 (585)
T ss_pred             cCCCCeEEEEecc------ccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCC-------------HHHHHHHHHHHh
Confidence                   111111      01123334555443322    335699999999886             345678888888


Q ss_pred             CCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHH
Q psy450          332 GVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGAD  410 (478)
Q Consensus       332 ~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~d  410 (478)
                      ..  ...+++|.+++.++.+.+.+++  |+. .+.|.. ++..+...+++..+.+.++.-+ ..+..++..+ +| +.++
T Consensus       146 ep--p~~tv~Il~t~~~~kll~tI~S--R~~-~i~f~~-l~~~el~~~L~~~a~~egl~i~~eal~~La~~s-~G-dlr~  217 (585)
T PRK14950        146 EP--PPHAIFILATTEVHKVPATILS--RCQ-RFDFHR-HSVADMAAHLRKIAAAEGINLEPGALEAIARAA-TG-SMRD  217 (585)
T ss_pred             cC--CCCeEEEEEeCChhhhhHHHHh--ccc-eeeCCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CC-CHHH
Confidence            53  3456677777778888888887  874 567765 6778888888877766554322 2255666654 32 4444


Q ss_pred             HHHHHH
Q psy450          411 IYSICS  416 (478)
Q Consensus       411 i~~l~~  416 (478)
                      +.+.+.
T Consensus       218 al~~Le  223 (585)
T PRK14950        218 AENLLQ  223 (585)
T ss_pred             HHHHHH
Confidence            444444

>PRK09087 hypothetical protein; Validated

Probab=99.35  E-value=1.9e-11  Score=114.05  Aligned_cols=199  Identities=14%  Similarity=0.087  Sum_probs=114.4

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcc
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQ  277 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~  277 (478)
                      ....+..++++++.-+.....+. .+..+.   +.....++|+||+|+|||||++++++..+..  +++..++...    
T Consensus        12 ~~~~~~~~~~~Fi~~~~N~~a~~-~l~~~~---~~~~~~l~l~G~~GsGKThLl~~~~~~~~~~--~i~~~~~~~~----   81 (226)
T PRK09087         12 FSHDPAYGRDDLLVTESNRAAVS-LVDHWP---NWPSPVVVLAGPVGSGKTHLASIWREKSDAL--LIHPNEIGSD----   81 (226)
T ss_pred             CCCCCCCChhceeecCchHHHHH-HHHhcc---cCCCCeEEEECCCCCCHHHHHHHHHHhcCCE--EecHHHcchH----
Confidence            44556778999875222222222 222211   2223449999999999999999999876554  4444332211    


Q ss_pred             hHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC---CCcc
Q psy450          278 SEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL---LDPA  354 (478)
Q Consensus       278 ~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~---ld~~  354 (478)
                             .+.....   .+|+|||++.+...           +..+..+++.+   ...++.+|++++..|..   ..+.
T Consensus        82 -------~~~~~~~---~~l~iDDi~~~~~~-----------~~~lf~l~n~~---~~~g~~ilits~~~p~~~~~~~~d  137 (226)
T PRK09087         82 -------AANAAAE---GPVLIEDIDAGGFD-----------ETGLFHLINSV---RQAGTSLLMTSRLWPSSWNVKLPD  137 (226)
T ss_pred             -------HHHhhhc---CeEEEECCCCCCCC-----------HHHHHHHHHHH---HhCCCeEEEECCCChHHhcccccc
Confidence                   1111111   38889999976311           12233333332   33445666666655532   3678


Q ss_pred             ccCCCCCCeEEEeCC-CCCHHHHHHHHHHHHhcCCCCC-CCCHHHHHHhcCCCCCHHHHHHHH---HHHHHHHHHHHHhc
Q psy450          355 ILRPGRLDKSLYVGL-YEDRISQLGVLKAVVRKFKLSD-DVSLDSLVHHFPSQMSGADIYSIC---SNAWTRAIRRIITS  429 (478)
Q Consensus       355 l~~~~Rf~~~i~~~~-pp~~~~r~~il~~~~~~~~~~~-~~~~~~la~~~~~~~sg~di~~l~---~~a~~~a~~r~~~~  429 (478)
                      +++  ||.....+.+ ||+.+.|..+++..++..++.- +.-++.|+.+.+     ++++.+.   ......+..     
T Consensus       138 L~S--Rl~~gl~~~l~~pd~e~~~~iL~~~~~~~~~~l~~ev~~~La~~~~-----r~~~~l~~~l~~L~~~~~~-----  205 (226)
T PRK09087        138 LKS--RLKAATVVEIGEPDDALLSQVIFKLFADRQLYVDPHVVYYLVSRME-----RSLFAAQTIVDRLDRLALE-----  205 (226)
T ss_pred             HHH--HHhCCceeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhh-----hhHHHHHHHHHHHHHHHHH-----
Confidence            888  9875555544 5899999999998887654432 222777777762     3444443   332222222     


Q ss_pred             CCCCCCCCccccHHHHHhc
Q psy450          430 APQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A  448 (478)
                            ....+|...++++
T Consensus       206 ------~~~~it~~~~~~~  218 (226)
T PRK09087        206 ------RKSRITRALAAEV  218 (226)
T ss_pred             ------hCCCCCHHHHHHH
Confidence                  1346888888887

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.34  E-value=1.2e-11  Score=121.33  Aligned_cols=163  Identities=18%  Similarity=0.314  Sum_probs=105.5

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC-------CcEEEE-e-----c
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR-------MNFLAV-K-----G  267 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~-------~~~~~v-~-----~  267 (478)
                      .+...|.+++|++++|..|.-.+..+.      ..++||.|++|||||++++++++.+.       .+|... +     +
T Consensus        11 ~~~~pf~~ivGq~~~k~al~~~~~~p~------~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~~~p~~p~~~~   84 (350)
T CHL00081         11 RPVFPFTAIVGQEEMKLALILNVIDPK------IGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFNSHPSDPELMS   84 (350)
T ss_pred             CCCCCHHHHhChHHHHHHHHHhccCCC------CCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCCCCCCChhhhc
Confidence            456779999999999999887665543      45799999999999999999987763       222200 0     0


Q ss_pred             hhhhhh-------------------hhcchHHHH------HHHHHHhH---------hCCCeEEEEcCCccccCCCCCCC
Q psy450          268 PELLNK-------------------YIGQSEENI------RNVFLKAR---------SAAPCVVFFDELDSLAPRRGQED  313 (478)
Q Consensus       268 ~~l~~~-------------------~~g~~~~~~------~~~~~~a~---------~~~p~il~iDeid~l~~~~~~~~  313 (478)
                      .++...                   -.|.++..+      ...+....         .....+||+||++.+.+      
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL~~------  158 (350)
T CHL00081         85 DEVREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDD------  158 (350)
T ss_pred             hhhhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhCCH------
Confidence            000000                   011122221      11111110         11235999999999973      


Q ss_pred             CCchhHHHHHHHHHHhhcC---------C--CCCCCeEEEEEcCCCC-CCCccccCCCCCCeEEEeCCCCCHHHHHHHHH
Q psy450          314 QSSGVMDRVVSQLLAEMDG---------V--HTSQDVFILGATNRVD-LLDPAILRPGRLDKSLYVGLYEDRISQLGVLK  381 (478)
Q Consensus       314 ~~~~~~~~~~~~ll~~l~~---------~--~~~~~v~vI~ttn~~~-~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~  381 (478)
                             .....|+..|+.         .  ....++++|+|.|..+ .+++++..  ||...+.+..|...+.+.+|++
T Consensus       159 -------~~Q~~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~Lld--Rf~l~i~l~~~~~~~~e~~il~  229 (350)
T CHL00081        159 -------HLVDILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGMHAEIRTVKDPELRVKIVE  229 (350)
T ss_pred             -------HHHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHH--HhCceeecCCCCChHHHHHHHH
Confidence                   445556666543         1  1134688888877654 58899999  9999999998655788989997


Q ss_pred             HHH
Q psy450          382 AVV  384 (478)
Q Consensus       382 ~~~  384 (478)
                      ...
T Consensus       230 ~~~  232 (350)
T CHL00081        230 QRT  232 (350)
T ss_pred             hhh
Confidence            653

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.34  E-value=4.8e-11  Score=126.40  Aligned_cols=182  Identities=19%  Similarity=0.247  Sum_probs=125.5

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc---------------------
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN---------------------  261 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~---------------------  261 (478)
                      +.+|++++|++.+++.|...+..     +..++.+||+||+|+|||++|+.+|+.+.+.                     
T Consensus        13 P~~f~~viGq~~~~~~L~~~i~~-----~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~   87 (614)
T PRK14971         13 PSTFESVVGQEALTTTLKNAIAT-----NKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQ   87 (614)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-----CCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcC
Confidence            46799999999999998887653     3336779999999999999999999987532                     


Q ss_pred             ----EEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC
Q psy450          262 ----FLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV  333 (478)
Q Consensus       262 ----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~  333 (478)
                          ++.+++.+      ......++.+...+..    ...-|++|||+|.+.             ....+.|++.++..
T Consensus        88 ~~~n~~~ld~~~------~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls-------------~~a~naLLK~LEep  148 (614)
T PRK14971         88 RSYNIHELDAAS------NNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLS-------------QAAFNAFLKTLEEP  148 (614)
T ss_pred             CCCceEEecccc------cCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCC-------------HHHHHHHHHHHhCC
Confidence                22232211      1123456666655532    234599999999996             34678899999853


Q ss_pred             CCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHHH
Q psy450          334 HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADIY  412 (478)
Q Consensus       334 ~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di~  412 (478)
                        ....++|.+|+.+..+-+.+++  |+. .+.|.. ++.++...+++..+.+.++..+. .+..++..+  |-+.+++.
T Consensus       149 --p~~tifIL~tt~~~kIl~tI~S--Rc~-iv~f~~-ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s--~gdlr~al  220 (614)
T PRK14971        149 --PSYAIFILATTEKHKILPTILS--RCQ-IFDFNR-IQVADIVNHLQYVASKEGITAEPEALNVIAQKA--DGGMRDAL  220 (614)
T ss_pred             --CCCeEEEEEeCCchhchHHHHh--hhh-eeecCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc--CCCHHHHH
Confidence              3456677777777889999998  874 577765 67788888888877776655332 256677665  33444444


Q ss_pred             HHHH
Q psy450          413 SICS  416 (478)
Q Consensus       413 ~l~~  416 (478)
                      +.+.
T Consensus       221 ~~Le  224 (614)
T PRK14971        221 SIFD  224 (614)
T ss_pred             HHHH
Confidence            4443

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.30  E-value=3.3e-11  Score=118.33  Aligned_cols=158  Identities=19%  Similarity=0.285  Sum_probs=99.4

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-------CCcEE---------EEech
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-------RMNFL---------AVKGP  268 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-------~~~~~---------~v~~~  268 (478)
                      .|..|+|++++|..|.-.+..+.      ..+++|.|+||+|||+++++++..+       +.++-         ..+|.
T Consensus         2 pf~~ivgq~~~~~al~~~~~~~~------~g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r   75 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVIDPK------IGGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPEMMCEEVR   75 (337)
T ss_pred             CccccccHHHHHHHHHHHhcCCC------CCeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCccccChHHh
Confidence            47889999999988765554432      4579999999999999999999877       22221         00000


Q ss_pred             hh----------------hhhhhcchHHHHHHHH--HHh-------------HhCCCeEEEEcCCccccCCCCCCCCCch
Q psy450          269 EL----------------LNKYIGQSEENIRNVF--LKA-------------RSAAPCVVFFDELDSLAPRRGQEDQSSG  317 (478)
Q Consensus       269 ~l----------------~~~~~g~~~~~~~~~~--~~a-------------~~~~p~il~iDeid~l~~~~~~~~~~~~  317 (478)
                      ..                ...-.|.++..+..-.  ..+             ......+||+||++.+.+          
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L~~----------  145 (337)
T TIGR02030        76 IRVDSQEPLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNLLED----------  145 (337)
T ss_pred             hhhhcccccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHhCCH----------
Confidence            00                0000011111111110  000             012235999999999863          


Q ss_pred             hHHHHHHHHHHhhcCCC-----------CCCCeEEEEEcCCCC-CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHH
Q psy450          318 VMDRVVSQLLAEMDGVH-----------TSQDVFILGATNRVD-LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAV  383 (478)
Q Consensus       318 ~~~~~~~~ll~~l~~~~-----------~~~~v~vI~ttn~~~-~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~  383 (478)
                         .....|+..|+.-.           ...++++|+|.|..+ .++++++.  ||...+.++.|.+.++|.+|++..
T Consensus       146 ---~~Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~eg~l~~~Lld--Rf~l~i~l~~p~~~eer~eIL~~~  218 (337)
T TIGR02030       146 ---HLVDVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGLHAEIRTVRDVELRVEIVERR  218 (337)
T ss_pred             ---HHHHHHHHHHHhCCeEEEECCEEEEcCCCEEEEeccccccCCCCHHHHh--hcceEEECCCCCCHHHHHHHHHhh
Confidence               45566666664211           124688888887654 58899999  999999999865668888888764

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.

>PHA02244 ATPase-like protein

Probab=99.29  E-value=5.6e-10  Score=108.99  Aligned_cols=120  Identities=21%  Similarity=0.297  Sum_probs=77.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhc---chHHHHHHHHHHhHhCCCeEEEEcCCccccCCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIG---QSEENIRNVFLKARSAAPCVVFFDELDSLAPRRG  310 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g---~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~  310 (478)
                      ..+++|+||||||||++|+++|..++.+++.++...-.....|   ........-|-.+. ...++++|||++.+.+.  
T Consensus       119 ~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~~g~~~dgpLl~A~-~~GgvLiLDEId~a~p~--  195 (383)
T PHA02244        119 NIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDANGKFHETPFYEAF-KKGGLFFIDEIDASIPE--  195 (383)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccccccccchHHHHHh-hcCCEEEEeCcCcCCHH--
Confidence            4459999999999999999999999999999884211111111   11111111222222 23469999999988632  


Q ss_pred             CCCCCchhHHHHHHHHHHhhcC---------CCCCCCeEEEEEcCCC-----------CCCCccccCCCCCCeEEEeCCC
Q psy450          311 QEDQSSGVMDRVVSQLLAEMDG---------VHTSQDVFILGATNRV-----------DLLDPAILRPGRLDKSLYVGLY  370 (478)
Q Consensus       311 ~~~~~~~~~~~~~~~ll~~l~~---------~~~~~~v~vI~ttn~~-----------~~ld~~l~~~~Rf~~~i~~~~p  370 (478)
                                 +...|...++.         .....++.+|+|+|.+           ..++++++.  ||- .++++.|
T Consensus       196 -----------vq~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~AllD--RFv-~I~~dyp  261 (383)
T PHA02244        196 -----------ALIIINSAIANKFFDFADERVTAHEDFRVISAGNTLGKGADHIYVARNKIDGATLD--RFA-PIEFDYD  261 (383)
T ss_pred             -----------HHHHHHHHhccCeEEecCcEEecCCCEEEEEeeCCCccCcccccCCCcccCHHHHh--hcE-EeeCCCC
Confidence                       23333333321         1123578999999984           457899999  994 6888874

>KOG1969|consensus

Probab=99.29  E-value=1.2e-10  Score=119.86  Aligned_cols=202  Identities=17%  Similarity=0.210  Sum_probs=128.5

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhh---------------------------hhhCCCC-CceEEEeCCCCChHHH
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGV---------------------------NRTSGLK-RSGLLLYGPPGTGKTL  249 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~---------------------------~~~~~~~-~~~iLl~Gp~GtGKT~  249 (478)
                      ...+.+..|.|+.|-+.+-..+...+..+                           ....+.+ .+-+||+||||.||||
T Consensus       262 Vdky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGlGKTT  341 (877)
T KOG1969|consen  262 VDKYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGLGKTT  341 (877)
T ss_pred             ecccChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCCChhH
Confidence            44556667888888887777666655443                           0011222 3458899999999999


Q ss_pred             HHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHh--------HhCCCeEEEEcCCccccCCCCCCCCCchhHHH
Q psy450          250 IAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKA--------RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDR  321 (478)
Q Consensus       250 la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a--------~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~  321 (478)
                      ||+.+|+..|..++.+|.++-.      +...++..+..|        ...+|.+|++||||--.             ..
T Consensus       342 LAHViAkqaGYsVvEINASDeR------t~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~-------------~~  402 (877)
T KOG1969|consen  342 LAHVIAKQAGYSVVEINASDER------TAPMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAP-------------RA  402 (877)
T ss_pred             HHHHHHHhcCceEEEecccccc------cHHHHHHHHHHHHhhccccccCCCcceEEEecccCCc-------------HH
Confidence            9999999999999999987643      333333333333        12578999999998543             22


Q ss_pred             HHHHHHHhhc-------CCCC--C----------CCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHH
Q psy450          322 VVSQLLAEMD-------GVHT--S----------QDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKA  382 (478)
Q Consensus       322 ~~~~ll~~l~-------~~~~--~----------~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~  382 (478)
                      .+..++..+.       |-..  .          -...|||.+|....  |+|+.---|.+.++|.. |......+-|+.
T Consensus       403 ~Vdvilslv~a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLYa--PaLR~Lr~~A~ii~f~~-p~~s~Lv~RL~~  479 (877)
T KOG1969|consen  403 AVDVILSLVKATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLYA--PALRPLRPFAEIIAFVP-PSQSRLVERLNE  479 (877)
T ss_pred             HHHHHHHHHHhhcchhhcCcccchhhhhhhccccccCCEEEEecCccc--hhhhhcccceEEEEecC-CChhHHHHHHHH
Confidence            3333333322       1000  0          01458999998776  67753226778888875 677766677777


Q ss_pred             HHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Q psy450          383 VVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR  425 (478)
Q Consensus       383 ~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r  425 (478)
                      .+...+...+  ...|...+  .++..||+.+++.....+.+-
T Consensus       480 IC~rE~mr~d--~~aL~~L~--el~~~DIRsCINtLQfLa~~~  518 (877)
T KOG1969|consen  480 ICHRENMRAD--SKALNALC--ELTQNDIRSCINTLQFLASNV  518 (877)
T ss_pred             HHhhhcCCCC--HHHHHHHH--HHhcchHHHHHHHHHHHHHhc
Confidence            6655554332  33343333  244569999998877766644

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.29  E-value=2e-10  Score=113.78  Aligned_cols=158  Identities=18%  Similarity=0.196  Sum_probs=108.5

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------EEEE----echh-
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------FLAV----KGPE-  269 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------~~~v----~~~~-  269 (478)
                      .+..+++++|++.+++.|...+..     |..+..+||+||+|+|||++|+.+|+.+.+.       ....    .|.. 
T Consensus        18 ~P~~~~~l~Gh~~a~~~L~~a~~~-----grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c   92 (351)
T PRK09112         18 SPSENTRLFGHEEAEAFLAQAYRE-----GKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVW   92 (351)
T ss_pred             CCCchhhccCcHHHHHHHHHHHHc-----CCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHH
Confidence            456789999999999999887652     3337789999999999999999999988541       1000    1110 


Q ss_pred             --hhhh----h--h-------------cchHHHHHHHHHHh----HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHH
Q psy450          270 --LLNK----Y--I-------------GQSEENIRNVFLKA----RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVS  324 (478)
Q Consensus       270 --l~~~----~--~-------------g~~~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  324 (478)
                        +...    +  .             .-+...++.+.+..    ..+...|++|||+|.+.             ....+
T Consensus        93 ~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~-------------~~aan  159 (351)
T PRK09112         93 RQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMN-------------RNAAN  159 (351)
T ss_pred             HHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcC-------------HHHHH
Confidence              0000    0  0             00123344443332    23445799999999997             34567


Q ss_pred             HHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHH
Q psy450          325 QLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAV  383 (478)
Q Consensus       325 ~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~  383 (478)
                      .|++.++..  ..+.++|..|+.|+.+.+.+++  |+ ..+.++. ++.++...+++..
T Consensus       160 aLLk~LEEp--p~~~~fiLit~~~~~llptIrS--Rc-~~i~l~p-l~~~~~~~~L~~~  212 (351)
T PRK09112        160 AILKTLEEP--PARALFILISHSSGRLLPTIRS--RC-QPISLKP-LDDDELKKALSHL  212 (351)
T ss_pred             HHHHHHhcC--CCCceEEEEECChhhccHHHHh--hc-cEEEecC-CCHHHHHHHHHHh
Confidence            899988863  3455666667888999999998  98 5888875 7888888888764

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.28  E-value=6.6e-11  Score=114.27  Aligned_cols=138  Identities=14%  Similarity=0.200  Sum_probs=94.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh--hhcchHH----------HHHHHHHHhHhCCCeEEEEcC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK--YIGQSEE----------NIRNVFLKARSAAPCVVFFDE  301 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~--~~g~~~~----------~~~~~~~~a~~~~p~il~iDe  301 (478)
                      .++++|.||||||||++++.+|+.++.+++.+++......  ..|...-          .....+..|.. .++++++||
T Consensus        64 ~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~~-~g~illlDE  142 (327)
T TIGR01650        64 DRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWALQ-HNVALCFDE  142 (327)
T ss_pred             CCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHHh-CCeEEEech
Confidence            4569999999999999999999999999999988655443  3343211          11123334433 357899999


Q ss_pred             CccccCCCCCCCCCchhHHHHHHHHHHh-----hc----CCCCCCCeEEEEEcCCCC------------CCCccccCCCC
Q psy450          302 LDSLAPRRGQEDQSSGVMDRVVSQLLAE-----MD----GVHTSQDVFILGATNRVD------------LLDPAILRPGR  360 (478)
Q Consensus       302 id~l~~~~~~~~~~~~~~~~~~~~ll~~-----l~----~~~~~~~v~vI~ttn~~~------------~ld~~l~~~~R  360 (478)
                      +|...++.          ...++.++..     +.    .+...+.+.||+|.|..+            .++++++.  |
T Consensus       143 in~a~p~~----------~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~~l~~A~lD--R  210 (327)
T TIGR01650       143 YDAGRPDV----------MFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGDTTGLYHGTQQINQAQMD--R  210 (327)
T ss_pred             hhccCHHH----------HHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCCCCcceeeeecCCHHHHh--h
Confidence            99886431          2334444432     11    111234688999999864            36889998  9


Q ss_pred             CCeEEEeCCCCCHHHHHHHHHHHHh
Q psy450          361 LDKSLYVGLYEDRISQLGVLKAVVR  385 (478)
Q Consensus       361 f~~~i~~~~pp~~~~r~~il~~~~~  385 (478)
                      |-..+.++. |+.++..+|+.....
T Consensus       211 F~i~~~~~Y-p~~e~E~~Il~~~~~  234 (327)
T TIGR01650       211 WSIVTTLNY-LEHDNEAAIVLAKAK  234 (327)
T ss_pred             eeeEeeCCC-CCHHHHHHHHHhhcc
Confidence            988888887 577777788876543

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.

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.28  E-value=3.3e-11  Score=128.89  Aligned_cols=156  Identities=21%  Similarity=0.310  Sum_probs=103.6

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC-------------------------
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR-------------------------  259 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~-------------------------  259 (478)
                      .|..|+|++.++..|.-....+.      ..++||.|++|||||++|+++++.+.                         
T Consensus         2 pf~~ivGq~~~~~al~~~av~~~------~g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~~~~~~~~   75 (633)
T TIGR02442         2 PFTAIVGQEDLKLALLLNAVDPR------IGGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPEEWCEECR   75 (633)
T ss_pred             CcchhcChHHHHHHHHHHhhCCC------CCeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCccccChhhh
Confidence            47899999999987765544332      34699999999999999999998872                         


Q ss_pred             ----------CcEEEEechhhhhhhhcch--HHHH--------HHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhH
Q psy450          260 ----------MNFLAVKGPELLNKYIGQS--EENI--------RNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVM  319 (478)
Q Consensus       260 ----------~~~~~v~~~~l~~~~~g~~--~~~~--------~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~  319 (478)
                                .+|+.+.+.......+|..  ...+        ...+..   ....+|||||++.+.             
T Consensus        76 ~~~~~~~~~~~pfv~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~L~~---A~~GiL~lDEi~~l~-------------  139 (633)
T TIGR02442        76 RKYRPSEQRPVPFVNLPLGATEDRVVGSLDIERALREGEKAFQPGLLAE---AHRGILYIDEVNLLD-------------  139 (633)
T ss_pred             hcccccccCCCCeeeCCCCCcHHHcCCcccHHHHhhcCCeeecCcceee---cCCCeEEeChhhhCC-------------
Confidence                      3555554432222222221  0000        011111   123599999999997             


Q ss_pred             HHHHHHHHHhhcCCC-----------CCCCeEEEEEcCCC-CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          320 DRVVSQLLAEMDGVH-----------TSQDVFILGATNRV-DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       320 ~~~~~~ll~~l~~~~-----------~~~~v~vI~ttn~~-~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                      ...++.|+..|+.-.           ...++.+|+|+|.. ..+.++|+.  ||+..+.++.+.+.+++.++++...
T Consensus       140 ~~~q~~Ll~~le~g~~~v~r~g~~~~~~~~~~lIat~np~eg~l~~~L~d--R~~l~i~v~~~~~~~~~~~il~~~~  214 (633)
T TIGR02442       140 DHLVDVLLDAAAMGVNRVEREGLSVSHPARFVLIGTMNPEEGDLRPQLLD--RFGLCVDVAAPRDPEERVEIIRRRL  214 (633)
T ss_pred             HHHHHHHHHHHhcCCEEEEECCceeeecCCeEEEEecCCCCCCCCHHHHh--hcceEEEccCCCchHHHHHHHHHHH
Confidence            356677777765321           12468899998853 357889999  9998888887666778888876543

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>KOG1051|consensus

Probab=99.26  E-value=6.4e-11  Score=126.86  Aligned_cols=125  Identities=25%  Similarity=0.355  Sum_probs=90.6

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCC--CCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhh---------h
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGL--KRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLN---------K  273 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~--~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~---------~  273 (478)
                      .++|++++...+.+.+.......+.  +...++|.||.|+|||-+|+++|..+   .-.++.++++++..         .
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~evskligsp~g  642 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQEVSKLIGSPPG  642 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechhhhhhhhhccCCCcc
Confidence            4688888888888877776544444  36678999999999999999999988   45789999986432         1


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC---------CCCeEEEEE
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT---------SQDVFILGA  344 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~---------~~~v~vI~t  344 (478)
                      |.|..+.  ..+....+....+||+|||||...+             .+++.|+..+|..+-         -++++||+|
T Consensus       643 yvG~e~g--g~LteavrrrP~sVVLfdeIEkAh~-------------~v~n~llq~lD~GrltDs~Gr~Vd~kN~I~IMT  707 (898)
T KOG1051|consen  643 YVGKEEG--GQLTEAVKRRPYSVVLFEEIEKAHP-------------DVLNILLQLLDRGRLTDSHGREVDFKNAIFIMT  707 (898)
T ss_pred             cccchhH--HHHHHHHhcCCceEEEEechhhcCH-------------HHHHHHHHHHhcCccccCCCcEeeccceEEEEe
Confidence            3444333  2455555667779999999999873             467777777765432         246999999


Q ss_pred             cCC
Q psy450          345 TNR  347 (478)
Q Consensus       345 tn~  347 (478)
                      +|.
T Consensus       708 sn~  710 (898)
T KOG1051|consen  708 SNV  710 (898)
T ss_pred             ccc
Confidence            875

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.26  E-value=1.9e-10  Score=113.24  Aligned_cols=152  Identities=16%  Similarity=0.226  Sum_probs=107.8

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc--------EEEEechhhhhhhhc
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN--------FLAVKGPELLNKYIG  276 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~--------~~~v~~~~l~~~~~g  276 (478)
                      +|++++|++.+++.+...+.     .+..++.+||+||+|+|||++|+.+++.+-+.        +..+...+  +  ..
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~-----~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~--~--~~   72 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSII-----KNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPIN--K--KS   72 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHH-----cCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEecccc--C--CC
Confidence            58999999999999887763     23347788999999999999999999987332        22332210  0  11


Q ss_pred             chHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCC
Q psy450          277 QSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD  352 (478)
Q Consensus       277 ~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld  352 (478)
                      -....++++...+.    .....|++||++|.+.             ....+.|++.++.  +..++++|.+|+.++.+.
T Consensus        73 i~v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m~-------------~~a~naLLK~LEe--pp~~t~~il~~~~~~~ll  137 (313)
T PRK05564         73 IGVDDIRNIIEEVNKKPYEGDKKVIIIYNSEKMT-------------EQAQNAFLKTIEE--PPKGVFIILLCENLEQIL  137 (313)
T ss_pred             CCHHHHHHHHHHHhcCcccCCceEEEEechhhcC-------------HHHHHHHHHHhcC--CCCCeEEEEEeCChHhCc
Confidence            12334666555332    2345699999999886             4567899999995  345666776778889999


Q ss_pred             ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                      +.+++  |+ ..+.+.. ++.++...+++...
T Consensus       138 ~TI~S--Rc-~~~~~~~-~~~~~~~~~l~~~~  165 (313)
T PRK05564        138 DTIKS--RC-QIYKLNR-LSKEEIEKFISYKY  165 (313)
T ss_pred             HHHHh--hc-eeeeCCC-cCHHHHHHHHHHHh
Confidence            99999  88 4777775 67777777776544

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

Probab=99.23  E-value=1.9e-10  Score=121.82  Aligned_cols=173  Identities=18%  Similarity=0.318  Sum_probs=128.8

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhh--
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELL--  271 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~--  271 (478)
                      -.+|.++|-++.+.++.+.+....      .++-+|.|+||+|||.++..+|...          +..++.++...+.  
T Consensus       167 gklDPvIGRd~EI~r~iqIL~RR~------KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAG  240 (786)
T COG0542         167 GKLDPVIGRDEEIRRTIQILSRRT------KNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAG  240 (786)
T ss_pred             CCCCCCcChHHHHHHHHHHHhccC------CCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhcc
Confidence            457889999998888877765432      4456899999999999999999876          5678888888876  


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC-
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL-  350 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~-  350 (478)
                      .+|-|+.+..++.+++......+.||||||+|.+.+..+..+. +.   ..-+-|.-.+    ..+.+-+|++|+.-+. 
T Consensus       241 akyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~-a~---DAaNiLKPaL----ARGeL~~IGATT~~EYR  312 (786)
T COG0542         241 AKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGG-AM---DAANLLKPAL----ARGELRCIGATTLDEYR  312 (786)
T ss_pred             ccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCccccc-cc---chhhhhHHHH----hcCCeEEEEeccHHHHH
Confidence            4588999999999999999888999999999999976543221 11   1222222222    3456778888875432 


Q ss_pred             ----CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC
Q psy450          351 ----LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS  394 (478)
Q Consensus       351 ----ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~  394 (478)
                          -|++|-|  ||. .+.+.- |+.++-..||+.+-.++.....|.
T Consensus       313 k~iEKD~AL~R--RFQ-~V~V~E-Ps~e~ti~ILrGlk~~yE~hH~V~  356 (786)
T COG0542         313 KYIEKDAALER--RFQ-KVLVDE-PSVEDTIAILRGLKERYEAHHGVR  356 (786)
T ss_pred             HHhhhchHHHh--cCc-eeeCCC-CCHHHHHHHHHHHHHHHHHccCce
Confidence                4889999  996 556665 799999999998877666555443

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.21  E-value=1.9e-10  Score=114.06  Aligned_cols=148  Identities=24%  Similarity=0.379  Sum_probs=96.8

Q ss_pred             ccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh--hhcchHHHHH---
Q psy450          209 IGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK--YIGQSEENIR---  283 (478)
Q Consensus       209 i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~--~~g~~~~~~~---  283 (478)
                      ++|.++++..+...+..        ..++||.||||||||++|+.+|..++.+|+.+.|..-...  ..|...-...   
T Consensus        26 ~~g~~~~~~~~l~a~~~--------~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~~~~~~~~~   97 (329)
T COG0714          26 VVGDEEVIELALLALLA--------GGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLE   97 (329)
T ss_pred             eeccHHHHHHHHHHHHc--------CCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCchhHhhhhcc
Confidence            45555555544332221        5569999999999999999999999999999998643221  1222111111   


Q ss_pred             -H--------HHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC----------CCCCCCeEEEEE
Q psy450          284 -N--------VFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG----------VHTSQDVFILGA  344 (478)
Q Consensus       284 -~--------~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~----------~~~~~~v~vI~t  344 (478)
                       .        +|....    +++++|||+...+             .+.+.|+..|+.          +.-...++||+|
T Consensus        98 ~~~~~~~~gpl~~~~~----~ill~DEInra~p-------------~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT  160 (329)
T COG0714          98 PGEFRFVPGPLFAAVR----VILLLDEINRAPP-------------EVQNALLEALEERQVTVPGLTTIRLPPPFIVIAT  160 (329)
T ss_pred             CCeEEEecCCcccccc----eEEEEeccccCCH-------------HHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEc
Confidence             0        111101    3999999998874             455666666554          233467889999


Q ss_pred             cCC-----CCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHH
Q psy450          345 TNR-----VDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAV  383 (478)
Q Consensus       345 tn~-----~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~  383 (478)
                      +|.     -..+++++++  ||-..++++.|+..++...++...
T Consensus       161 ~Np~e~~g~~~l~eA~ld--Rf~~~~~v~yp~~~~e~~~i~~~~  202 (329)
T COG0714         161 QNPGEYEGTYPLPEALLD--RFLLRIYVDYPDSEEEERIILARV  202 (329)
T ss_pred             cCccccCCCcCCCHHHHh--hEEEEEecCCCCchHHHHHHHHhC
Confidence            993     3558999999  999999999864555555455443

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.20  E-value=2.7e-10  Score=113.44  Aligned_cols=158  Identities=19%  Similarity=0.201  Sum_probs=108.7

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcE-------------------
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNF-------------------  262 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~-------------------  262 (478)
                      .+.++++|+|++.+++.|...+..     +..+..+||+||+|+||+++|.++|+.+-+.-                   
T Consensus        14 ~P~~~~~iiGq~~~~~~L~~~~~~-----~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~   88 (365)
T PRK07471         14 HPRETTALFGHAAAEAALLDAYRS-----GRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPD   88 (365)
T ss_pred             CCCchhhccChHHHHHHHHHHHHc-----CCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCC
Confidence            456789999999999999877654     33377899999999999999999999873211                   


Q ss_pred             ---------------EEEech--hhhhhh-hcchHHHHHHHHHHh----HhCCCeEEEEcCCccccCCCCCCCCCchhHH
Q psy450          263 ---------------LAVKGP--ELLNKY-IGQSEENIRNVFLKA----RSAAPCVVFFDELDSLAPRRGQEDQSSGVMD  320 (478)
Q Consensus       263 ---------------~~v~~~--~l~~~~-~g~~~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~  320 (478)
                                     +.+...  +-.... ..-....++.+.+.+    ....+.|++|||+|.+.             .
T Consensus        89 c~~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~-------------~  155 (365)
T PRK07471         89 HPVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMN-------------A  155 (365)
T ss_pred             ChHHHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcC-------------H
Confidence                           111100  000000 000123455554443    23567899999999986             4


Q ss_pred             HHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHH
Q psy450          321 RVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAV  383 (478)
Q Consensus       321 ~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~  383 (478)
                      ...+.|++.++.  ...+.++|.+|+.++.+.+.+++  |+ ..+.++. ++.++-..++...
T Consensus       156 ~aanaLLK~LEe--pp~~~~~IL~t~~~~~llpti~S--Rc-~~i~l~~-l~~~~i~~~L~~~  212 (365)
T PRK07471        156 NAANALLKVLEE--PPARSLFLLVSHAPARLLPTIRS--RC-RKLRLRP-LAPEDVIDALAAA  212 (365)
T ss_pred             HHHHHHHHHHhc--CCCCeEEEEEECCchhchHHhhc--cc-eEEECCC-CCHHHHHHHHHHh
Confidence            567889999885  34456777789999999999988  88 4667764 6777777777654

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.19  E-value=4.2e-10  Score=102.35  Aligned_cols=141  Identities=18%  Similarity=0.218  Sum_probs=94.6

Q ss_pred             CCceEEEeCCCCChHHHHHHHHHHHhCCc------------------------EEEEechhhhhhhhcchHHHHHHHHHH
Q psy450          233 KRSGLLLYGPPGTGKTLIAKAVATECRMN------------------------FLAVKGPELLNKYIGQSEENIRNVFLK  288 (478)
Q Consensus       233 ~~~~iLl~Gp~GtGKT~la~~la~~~~~~------------------------~~~v~~~~l~~~~~g~~~~~~~~~~~~  288 (478)
                      .+..+||+||+|+|||++|+.+++.+...                        +..+....     ..-....++.+.+.
T Consensus        13 ~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~-----~~~~~~~i~~i~~~   87 (188)
T TIGR00678        13 LAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEG-----QSIKVDQVRELVEF   87 (188)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEecccc-----CcCCHHHHHHHHHH
Confidence            36779999999999999999999987432                        22222110     01123455555555


Q ss_pred             hHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeE
Q psy450          289 ARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKS  364 (478)
Q Consensus       289 a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~  364 (478)
                      +..    ..+.|++|||+|.+.             ....+.|+..++..  .....+|.+|+.+..+.+++++  |+ ..
T Consensus        88 ~~~~~~~~~~kviiide~~~l~-------------~~~~~~Ll~~le~~--~~~~~~il~~~~~~~l~~~i~s--r~-~~  149 (188)
T TIGR00678        88 LSRTPQESGRRVVIIEDAERMN-------------EAAANALLKTLEEP--PPNTLFILITPSPEKLLPTIRS--RC-QV  149 (188)
T ss_pred             HccCcccCCeEEEEEechhhhC-------------HHHHHHHHHHhcCC--CCCeEEEEEECChHhChHHHHh--hc-EE
Confidence            533    345699999999986             24567788888863  3456677777788899999998  87 47


Q ss_pred             EEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhc
Q psy450          365 LYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHF  402 (478)
Q Consensus       365 i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~  402 (478)
                      +.+.. ++.++..++++..    +++.+ .+..++..+
T Consensus       150 ~~~~~-~~~~~~~~~l~~~----gi~~~-~~~~i~~~~  181 (188)
T TIGR00678       150 LPFPP-LSEEALLQWLIRQ----GISEE-AAELLLALA  181 (188)
T ss_pred             eeCCC-CCHHHHHHHHHHc----CCCHH-HHHHHHHHc
Confidence            77775 6888887888665    33322 255555544

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.

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

Probab=99.18  E-value=8e-10  Score=110.77  Aligned_cols=140  Identities=22%  Similarity=0.378  Sum_probs=86.5

Q ss_pred             cccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------EEEEec----hhhhhhh
Q psy450          206 WEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------FLAVKG----PELLNKY  274 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------~~~v~~----~~l~~~~  274 (478)
                      ++++.+.+...+.+...+..        .++++|+||||||||++|+.+|..+...       ++.+..    .+++..+
T Consensus       174 l~d~~i~e~~le~l~~~L~~--------~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~  245 (459)
T PRK11331        174 LNDLFIPETTIETILKRLTI--------KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGY  245 (459)
T ss_pred             hhcccCCHHHHHHHHHHHhc--------CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhccc
Confidence            45666666666666544331        4579999999999999999999987431       122221    2222222


Q ss_pred             h----cch--HHHHHHHHHHhHh--CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhc---------------
Q psy450          275 I----GQS--EENIRNVFLKARS--AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMD---------------  331 (478)
Q Consensus       275 ~----g~~--~~~~~~~~~~a~~--~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~---------------  331 (478)
                      .    |..  ...+..+...|..  ..|++|+|||+++....            ++...++..++               
T Consensus       246 rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~------------kiFGel~~lLE~~~rg~~~~v~l~y~  313 (459)
T PRK11331        246 RPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLS------------KVFGEVMMLMEHDKRGENWSVPLTYS  313 (459)
T ss_pred             CCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHH------------Hhhhhhhhhccccccccccceeeecc
Confidence            1    110  1123344555554  35799999999987632            22222222222               


Q ss_pred             -----CCCCCCCeEEEEEcCCCC----CCCccccCCCCCCeEEEeC
Q psy450          332 -----GVHTSQDVFILGATNRVD----LLDPAILRPGRLDKSLYVG  368 (478)
Q Consensus       332 -----~~~~~~~v~vI~ttn~~~----~ld~~l~~~~Rf~~~i~~~  368 (478)
                           .+....++.||||.|..+    .+|.+++|  ||. .+.+.
T Consensus       314 e~d~e~f~iP~Nl~IIgTMNt~Drs~~~lD~AlrR--RF~-fi~i~  356 (459)
T PRK11331        314 ENDEERFYVPENVYIIGLMNTADRSLAVVDYALRR--RFS-FIDIE  356 (459)
T ss_pred             ccccccccCCCCeEEEEecCccccchhhccHHHHh--hhh-eEEec
Confidence                 233456899999999987    69999999  994 45554

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.18  E-value=2.6e-09  Score=101.70  Aligned_cols=69  Identities=26%  Similarity=0.477  Sum_probs=50.5

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC--CcEEEEechhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR--MNFLAVKGPEL  270 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~--~~~~~v~~~~l  270 (478)
                      .+...-+.++|+.++.+..--++..... .....+++|+.||||||||.+|-++|+++|  .||..++++++
T Consensus        33 ~~k~~~dG~VGQ~~AReAaGvIv~mik~-gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~isgsEi  103 (450)
T COG1224          33 KAKFIGDGLVGQEEAREAAGVIVKMIKQ-GKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEI  103 (450)
T ss_pred             CEeEcCCcccchHHHHHhhhHHHHHHHh-CcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCceeecccee
Confidence            3555667899999988765444333322 123388999999999999999999999996  57777666554

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.17  E-value=4e-10  Score=119.46  Aligned_cols=56  Identities=27%  Similarity=0.374  Sum_probs=47.3

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN  261 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~  261 (478)
                      ...+|..-|++++|+++++..+...+..        +.+++|+||||||||++++++++.++..
T Consensus         9 ~~~~~~~~~~~viG~~~a~~~l~~a~~~--------~~~~ll~G~pG~GKT~la~~la~~l~~~   64 (608)
T TIGR00764         9 EIPVPERLIDQVIGQEEAVEIIKKAAKQ--------KRNVLLIGEPGVGKSMLAKAMAELLPDE   64 (608)
T ss_pred             ccCcchhhHhhccCHHHHHHHHHHHHHc--------CCCEEEECCCCCCHHHHHHHHHHHcCch
Confidence            4457888899999999999988876653        2479999999999999999999988654

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

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.17  E-value=4.3e-10  Score=105.45  Aligned_cols=124  Identities=27%  Similarity=0.456  Sum_probs=87.6

Q ss_pred             cccCcHHHHHHHHHHHHhhhhh---------CCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh-hhhcc
Q psy450          208 DIGGLSKLKAEILSTFRGVNRT---------SGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN-KYIGQ  277 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~---------~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~-~~~g~  277 (478)
                      -++|++..|+.|.-.+..-..+         -.....+|||.||+|||||.||+.+|+.++.||-.-++..+.. .|+|+
T Consensus        62 YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEAGYVGE  141 (408)
T COG1219          62 YVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGE  141 (408)
T ss_pred             heecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhccccch
Confidence            4688888888775443322111         1122568999999999999999999999999999999888864 48888


Q ss_pred             hHHHHH-HHHHHh----HhCCCeEEEEcCCccccCCCCCCC---CCchhHHHHHHHHHHhhcCC
Q psy450          278 SEENIR-NVFLKA----RSAAPCVVFFDELDSLAPRRGQED---QSSGVMDRVVSQLLAEMDGV  333 (478)
Q Consensus       278 ~~~~~~-~~~~~a----~~~~p~il~iDeid~l~~~~~~~~---~~~~~~~~~~~~ll~~l~~~  333 (478)
                      ...++- .+++.|    .+....||||||||+++.+....+   +.++  ..+...||+.++|.
T Consensus       142 DVENillkLlqaadydV~rAerGIIyIDEIDKIarkSeN~SITRDVSG--EGVQQALLKiiEGT  203 (408)
T COG1219         142 DVENILLKLLQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVSG--EGVQQALLKIIEGT  203 (408)
T ss_pred             hHHHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCCCCCcccccCc--hHHHHHHHHHHcCc
Confidence            776644 444433    223346999999999997653322   2233  46788899988874

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=99.17  E-value=3.9e-11  Score=120.56  Aligned_cols=157  Identities=25%  Similarity=0.365  Sum_probs=104.4

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh----
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK----  273 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~----  273 (478)
                      ....+|++|+|.+....++.+........    +..||+.|.+||||..+|++|.+..   +.||+.+||+.+-..    
T Consensus       239 ~a~y~f~~Iig~S~~m~~~~~~akr~A~t----dstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe~LlES  314 (560)
T COG3829         239 KAKYTFDDIIGESPAMLRVLELAKRIAKT----DSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPETLLES  314 (560)
T ss_pred             ccccchhhhccCCHHHHHHHHHHHhhcCC----CCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccCCHHHHHH
Confidence            45678999999999988888777665432    5679999999999999999998766   569999999665322    


Q ss_pred             -hhc--------chHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC-----CC----
Q psy450          274 -YIG--------QSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV-----HT----  335 (478)
Q Consensus       274 -~~g--------~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~-----~~----  335 (478)
                       .+|        .....-...|+.|..   ..||+|||..+.             ..+...||..++.-     ..    
T Consensus       315 ELFGye~GAFTGA~~~GK~GlfE~A~g---GTLFLDEIgemp-------------l~LQaKLLRVLQEkei~rvG~t~~~  378 (560)
T COG3829         315 ELFGYEKGAFTGASKGGKPGLFELANG---GTLFLDEIGEMP-------------LPLQAKLLRVLQEKEIERVGGTKPI  378 (560)
T ss_pred             HHhCcCCccccccccCCCCcceeeccC---CeEEehhhccCC-------------HHHHHHHHHHHhhceEEecCCCCce
Confidence             122        222112334544443   389999999886             34556666655421     11    


Q ss_pred             CCCeEEEEEcCCCCCCCccccCCCCCCeEEEe-------CCCCCHHHHHHHH
Q psy450          336 SQDVFILGATNRVDLLDPAILRPGRLDKSLYV-------GLYEDRISQLGVL  380 (478)
Q Consensus       336 ~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~-------~~pp~~~~r~~il  380 (478)
                      .-+|.||++||+.  +..++. .|+|-.-+|+       .+||-++...+|.
T Consensus       379 ~vDVRIIAATN~n--L~~~i~-~G~FReDLYYRLNV~~i~iPPLReR~eDI~  427 (560)
T COG3829         379 PVDVRIIAATNRN--LEKMIA-EGTFREDLYYRLNVIPITIPPLRERKEDIP  427 (560)
T ss_pred             eeEEEEEeccCcC--HHHHHh-cCcchhhheeeeceeeecCCCcccCcchHH
Confidence            2259999999974  222332 3566554444       4477776655554

>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=99.16  E-value=6.4e-11  Score=102.16  Aligned_cols=110  Identities=25%  Similarity=0.417  Sum_probs=69.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh--hhcchHHH------HHHHHHHhHhCCCeEEEEcCCccccC
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK--YIGQSEEN------IRNVFLKARSAAPCVVFFDELDSLAP  307 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~--~~g~~~~~------~~~~~~~a~~~~p~il~iDeid~l~~  307 (478)
                      +++|+||||||||++++.+|+.++.+++.+++......  ..|...-.      ....+..+. ..+++++|||++... 
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~-~~~~il~lDEin~a~-   78 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAM-RKGGILVLDEINRAP-   78 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTH-HEEEEEEESSCGG---
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccc-cceeEEEECCcccCC-
Confidence            48999999999999999999999999999887543211  11110000      000011111 145799999999875 


Q ss_pred             CCCCCCCCchhHHHHHHHHHHhhcCCCC-----------CC------CeEEEEEcCCCC----CCCccccCCCCC
Q psy450          308 RRGQEDQSSGVMDRVVSQLLAEMDGVHT-----------SQ------DVFILGATNRVD----LLDPAILRPGRL  361 (478)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~ll~~l~~~~~-----------~~------~v~vI~ttn~~~----~ld~~l~~~~Rf  361 (478)
                                  ..++..|+..++.-..           ..      ++.+|+|+|...    .+++++++  ||
T Consensus        79 ------------~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~l~~al~~--Rf  139 (139)
T PF07728_consen   79 ------------PEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKELSPALLD--RF  139 (139)
T ss_dssp             ------------HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTTTCHHHHT--T-
T ss_pred             ------------HHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCcCCHHHHh--hC
Confidence                        3455555555543110           11      389999999988    79999999  87

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.

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=99.16  E-value=4.2e-10  Score=111.76  Aligned_cols=196  Identities=23%  Similarity=0.310  Sum_probs=124.2

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh----
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK----  273 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~----  273 (478)
                      .+.....+|+|.+....++.+.+......    ...|||.|.+||||..+|++|-+..   ..||+.+||+.+-..    
T Consensus       217 ~~~~~~~~iIG~S~am~~ll~~i~~VA~S----d~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPesLlES  292 (550)
T COG3604         217 EVVLEVGGIIGRSPAMRQLLKEIEVVAKS----DSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPESLLES  292 (550)
T ss_pred             chhcccccceecCHHHHHHHHHHHHHhcC----CCeEEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccchHHHHH
Confidence            34667889999999999999888877543    5569999999999999999998766   569999999766422    


Q ss_pred             -hhcchHHHHHH-------HHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhc-----CCCCCC---
Q psy450          274 -YIGQSEENIRN-------VFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMD-----GVHTSQ---  337 (478)
Q Consensus       274 -~~g~~~~~~~~-------~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~-----~~~~~~---  337 (478)
                       .+|........       -|+.|   ..+.||+|||..+..             .+...|+..++     .+..+.   
T Consensus       293 ELFGHeKGAFTGA~~~r~GrFElA---dGGTLFLDEIGelPL-------------~lQaKLLRvLQegEieRvG~~r~ik  356 (550)
T COG3604         293 ELFGHEKGAFTGAINTRRGRFELA---DGGTLFLDEIGELPL-------------ALQAKLLRVLQEGEIERVGGDRTIK  356 (550)
T ss_pred             HHhcccccccccchhccCcceeec---CCCeEechhhccCCH-------------HHHHHHHHHHhhcceeecCCCceeE
Confidence             23322222111       12222   235999999988863             34444554443     222222   


Q ss_pred             -CeEEEEEcCCCCCCCccccCCCCCCeEEEeC-------CCCCHHHHHHHH---HHHHhc----CCCC-CCCC---HHHH
Q psy450          338 -DVFILGATNRVDLLDPAILRPGRLDKSLYVG-------LYEDRISQLGVL---KAVVRK----FKLS-DDVS---LDSL  398 (478)
Q Consensus       338 -~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~-------~pp~~~~r~~il---~~~~~~----~~~~-~~~~---~~~l  398 (478)
                       +|-||++||+  +|...++. |+|-.-+|+.       +||-++...+|.   ++++++    .+.. ...+   ++.+
T Consensus       357 VDVRiIAATNR--DL~~~V~~-G~FRaDLYyRLsV~Pl~lPPLRER~~DIplLA~~Fle~~~~~~gr~~l~ls~~Al~~L  433 (550)
T COG3604         357 VDVRVIAATNR--DLEEMVRD-GEFRADLYYRLSVFPLELPPLRERPEDIPLLAGYFLEKFRRRLGRAILSLSAEALELL  433 (550)
T ss_pred             EEEEEEeccch--hHHHHHHc-CcchhhhhhcccccccCCCCcccCCccHHHHHHHHHHHHHHhcCCcccccCHHHHHHH
Confidence             5889999998  33344443 5665444433       377776665554   444433    2221 1111   3333


Q ss_pred             HHhcCCCCCH--HHHHHHHHHHHHHH
Q psy450          399 VHHFPSQMSG--ADIYSICSNAWTRA  422 (478)
Q Consensus       399 a~~~~~~~sg--~di~~l~~~a~~~a  422 (478)
                      .. +  +|.|  +++++++.+|+..|
T Consensus       434 ~~-y--~wPGNVRELen~veRavlla  456 (550)
T COG3604         434 SS-Y--EWPGNVRELENVVERAVLLA  456 (550)
T ss_pred             Hc-C--CCCCcHHHHHHHHHHHHHHh
Confidence            33 2  3544  89999999999877

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

Probab=99.16  E-value=5e-10  Score=110.90  Aligned_cols=144  Identities=24%  Similarity=0.291  Sum_probs=98.9

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC------------------------CcEE
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR------------------------MNFL  263 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~------------------------~~~~  263 (478)
                      ++.|.+.+...+........    .-+..+||+||||+|||++|.++|+.+.                        ..++
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~----~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~l   77 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG----RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFL   77 (325)
T ss_pred             CcccchhHHHHHHHHHHhcC----CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceE
Confidence            45666666666655444221    1244699999999999999999999886                        4677


Q ss_pred             EEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCe
Q psy450          264 AVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDV  339 (478)
Q Consensus       264 ~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v  339 (478)
                      .++.++....  ......++.+.+....    ...-|++|||+|.+..             ...+.++..++.  ...+.
T Consensus        78 el~~s~~~~~--~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~-------------~A~nallk~lEe--p~~~~  140 (325)
T COG0470          78 ELNPSDLRKI--DIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTE-------------DAANALLKTLEE--PPKNT  140 (325)
T ss_pred             EecccccCCC--cchHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhH-------------HHHHHHHHHhcc--CCCCe
Confidence            7776654321  1134445555444422    3457999999999973             567888888874  45678


Q ss_pred             EEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHH
Q psy450          340 FILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQ  376 (478)
Q Consensus       340 ~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r  376 (478)
                      .+|.+||.++.+-+.+++  |+ ..+.|+. +.....
T Consensus       141 ~~il~~n~~~~il~tI~S--Rc-~~i~f~~-~~~~~~  173 (325)
T COG0470         141 RFILITNDPSKILPTIRS--RC-QRIRFKP-PSRLEA  173 (325)
T ss_pred             EEEEEcCChhhccchhhh--cc-eeeecCC-chHHHH
Confidence            888899999999999999  88 4566653 344443

>CHL00181 cbbX CbbX; Provisional

Probab=99.15  E-value=1.2e-09  Score=105.67  Aligned_cols=133  Identities=12%  Similarity=0.161  Sum_probs=95.6

Q ss_pred             HHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccc--------hhhHhhhccccccccccccchhhhccCCC
Q psy450           17 SHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNV--------KYVYFKLCSFDSVNVKSNETKDQQCKQQH   88 (478)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~--------r~~~~~l~~~d~~~~~~~~~~~~~~~~~~   88 (478)
                      +.+++.|++++.. +.+.+|+ .|   .++||||||+|.+++.        ..++.++..|+.              ..+
T Consensus       100 ~~l~~~~~g~~~~-~~~~~l~-~a---~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~--------------~~~  160 (287)
T CHL00181        100 DDLVGQYIGHTAP-KTKEVLK-KA---MGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMEN--------------QRD  160 (287)
T ss_pred             HHHHHHHhccchH-HHHHHHH-Hc---cCCEEEEEccchhccCCCccchHHHHHHHHHHHHhc--------------CCC
Confidence            4567778887654 5677776 54   4689999999998533        366777777873              234


Q ss_pred             cEEEEe------------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChh--HHHHHHHh--cCCCC-H
Q psy450           89 KKKLVL------------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDAS--LVEYLSSV--TSGFE-R  151 (478)
Q Consensus        89 ~v~via------------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~--~i~~la~~--t~G~s-~  151 (478)
                      .++||+            ++|+++|||+.+|+|+.|+.+++.+|++.++.+.+..+..+..  +.+.+.+.  .+.|. +
T Consensus       161 ~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~~GNa  240 (287)
T CHL00181        161 DLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANA  240 (287)
T ss_pred             CEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCCCccH
Confidence            455555            4799999999999999999999999999999876444443321  11223322  24566 8


Q ss_pred             HHHHHHHHHHHHHHHHh
Q psy450          152 HDLTCLVRLSVKNKMLK  168 (478)
Q Consensus       152 ~di~~l~~~a~~~a~~~  168 (478)
                      .+++++++.+..+...+
T Consensus       241 R~vrn~ve~~~~~~~~r  257 (287)
T CHL00181        241 RSVRNALDRARMRQANR  257 (287)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999999999887654

>KOG0991|consensus

Probab=99.14  E-value=3.1e-10  Score=101.83  Aligned_cols=161  Identities=21%  Similarity=0.204  Sum_probs=98.6

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-C----CcEEEEechhhhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-R----MNFLAVKGPELLNKY  274 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-~----~~~~~v~~~~l~~~~  274 (478)
                      .+.+..+.||+|.++..+.|.-+...-.      ..++++.||||||||+.+.++|+++ |    ..+++++.++-.+- 
T Consensus        20 KYrP~~l~dIVGNe~tv~rl~via~~gn------mP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGI-   92 (333)
T KOG0991|consen   20 KYRPSVLQDIVGNEDTVERLSVIAKEGN------MPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGI-   92 (333)
T ss_pred             hhCchHHHHhhCCHHHHHHHHHHHHcCC------CCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCcccccc-
Confidence            3445568899999999998876543221      4579999999999999999999987 3    23556665543211 


Q ss_pred             hcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          275 IGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       275 ~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                        ....+--+.|.+-+-    +...|+++||+|++..             .....+-..|+-....  ..+..++|..+.
T Consensus        93 --DvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~-------------gAQQAlRRtMEiyS~t--tRFalaCN~s~K  155 (333)
T KOG0991|consen   93 --DVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMTA-------------GAQQALRRTMEIYSNT--TRFALACNQSEK  155 (333)
T ss_pred             --HHHHHHHHHHHHhhccCCCCceeEEEeeccchhhh-------------HHHHHHHHHHHHHccc--chhhhhhcchhh
Confidence              122222334444332    2335999999999972             1223333334322232  235667788888


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCC
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFK  388 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~  388 (478)
                      +=+.+.+  |+...-+-.+  +..+.+.-+....+..+
T Consensus       156 IiEPIQS--RCAiLRyskl--sd~qiL~Rl~~v~k~Ek  189 (333)
T KOG0991|consen  156 IIEPIQS--RCAILRYSKL--SDQQILKRLLEVAKAEK  189 (333)
T ss_pred             hhhhHHh--hhHhhhhccc--CHHHHHHHHHHHHHHhC
Confidence            8888888  8865555554  44444444444444333

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

Probab=99.14  E-value=2.6e-09  Score=101.39  Aligned_cols=215  Identities=16%  Similarity=0.158  Sum_probs=124.4

Q ss_pred             cCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---------CCcEEEEechhh------hhh-
Q psy450          210 GGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---------RMNFLAVKGPEL------LNK-  273 (478)
Q Consensus       210 ~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---------~~~~~~v~~~~l------~~~-  273 (478)
                      +|+...++.|..+-.........+..++||+|++|.|||++++.+....         ..|++.+.++.-      ... 
T Consensus        37 IgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~I  116 (302)
T PF05621_consen   37 IGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAI  116 (302)
T ss_pred             ecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHH
Confidence            6666666655544333332233336789999999999999999998754         246777765321      110 


Q ss_pred             -------h-h-cchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCC--eEEE
Q psy450          274 -------Y-I-GQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD--VFIL  342 (478)
Q Consensus       274 -------~-~-g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~--v~vI  342 (478)
                             + . ....+....+..-.+..++-+|+|||++.+...+       ...++.+-.+++.+.   +.-+  ++.+
T Consensus       117 L~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs-------~~~qr~~Ln~LK~L~---NeL~ipiV~v  186 (302)
T PF05621_consen  117 LEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGS-------YRKQREFLNALKFLG---NELQIPIVGV  186 (302)
T ss_pred             HHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhccc-------HHHHHHHHHHHHHHh---hccCCCeEEe
Confidence                   1 0 1112222334445566777799999999976321       111233333333332   2233  4444


Q ss_pred             EEcCCCC--CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCC--CCCHHHHHH---hcCCCCCHHHHHHHH
Q psy450          343 GATNRVD--LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSD--DVSLDSLVH---HFPSQMSGADIYSIC  415 (478)
Q Consensus       343 ~ttn~~~--~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~--~~~~~~la~---~~~~~~sg~di~~l~  415 (478)
                      ||-.-..  .-|+.+.+  ||+.. .++.-...++...++..+-+.+++..  ...-.+++.   ..++|.+| ++..++
T Consensus       187 Gt~~A~~al~~D~QLa~--RF~~~-~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG-~l~~ll  262 (302)
T PF05621_consen  187 GTREAYRALRTDPQLAS--RFEPF-ELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIG-ELSRLL  262 (302)
T ss_pred             ccHHHHHHhccCHHHHh--ccCCc-cCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchH-HHHHHH
Confidence            4332212  23667777  99643 34442233455667777766665432  222223332   23478887 899999


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          416 SNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       416 ~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      +.|+..|++..          ...||.+.+...
T Consensus       263 ~~aA~~AI~sG----------~E~It~~~l~~~  285 (302)
T PF05621_consen  263 NAAAIAAIRSG----------EERITREILDKI  285 (302)
T ss_pred             HHHHHHHHhcC----------CceecHHHHhhC
Confidence            99999999875          567899888876

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

>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=99.13  E-value=1.9e-10  Score=102.30  Aligned_cols=111  Identities=23%  Similarity=0.342  Sum_probs=72.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC----cEEEEechhhhhhhhcchHHHHHHHHHHh----HhCCCeEEEEcCCccc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM----NFLAVKGPELLNKYIGQSEENIRNVFLKA----RSAAPCVVFFDELDSL  305 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~----~~~~v~~~~l~~~~~g~~~~~~~~~~~~a----~~~~p~il~iDeid~l  305 (478)
                      -.+++|.||+|||||.+|+++|+.+..    +++.++++++...  +.....+...+..+    ......||+|||||+.
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~--~~~~~~~~~l~~~~~~~v~~~~~gVVllDEidKa   80 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEG--DDVESSVSKLLGSPPGYVGAEEGGVVLLDEIDKA   80 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSH--HHCSCHCHHHHHHTTCHHHHHHHTEEEEETGGGC
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhccccc--chHHhhhhhhhhcccceeeccchhhhhhHHHhhc
Confidence            346899999999999999999999996    9999999988651  11111112222111    1111139999999999


Q ss_pred             cCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCeEEEEEcCCC
Q psy450          306 APRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDVFILGATNRV  348 (478)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~vI~ttn~~  348 (478)
                      .+..+..  .......+++.|+..+++-.         +..++++|+|+|--
T Consensus        81 ~~~~~~~--~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~  130 (171)
T PF07724_consen   81 HPSNSGG--ADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFG  130 (171)
T ss_dssp             SHTTTTC--SHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSS
T ss_pred             ccccccc--chhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEecccc
Confidence            9752222  22223467788888776421         13468999999864

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 ....

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.13  E-value=8.1e-10  Score=111.25  Aligned_cols=195  Identities=21%  Similarity=0.291  Sum_probs=119.8

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-----hh
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-----YI  275 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-----~~  275 (478)
                      ....+++|.+...+++.+.+......    ..+||++|++||||..+|++|....   +.||+.+||..+-..     .+
T Consensus       138 ~~~~~liG~S~am~~l~~~i~kvA~s----~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~l~ESELF  213 (464)
T COG2204         138 SLGGELVGESPAMQQLRRLIAKVAPS----DASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPENLLESELF  213 (464)
T ss_pred             cccCCceecCHHHHHHHHHHHHHhCC----CCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHHHHHHHhh
Confidence            45678999999999999988877543    5569999999999999999998766   569999999765322     22


Q ss_pred             cchHHH-------HHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC-----CCC----CCCe
Q psy450          276 GQSEEN-------IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG-----VHT----SQDV  339 (478)
Q Consensus       276 g~~~~~-------~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~-----~~~----~~~v  339 (478)
                      |.....       -...|+.|.   ...||||||..+.             ..+...|+..++.     +..    .-++
T Consensus       214 GhekGAFTGA~~~r~G~fE~A~---GGTLfLDEI~~mp-------------l~~Q~kLLRvLqe~~~~rvG~~~~i~vdv  277 (464)
T COG2204         214 GHEKGAFTGAITRRIGRFEQAN---GGTLFLDEIGEMP-------------LELQVKLLRVLQEREFERVGGNKPIKVDV  277 (464)
T ss_pred             cccccCcCCcccccCcceeEcC---CceEEeeccccCC-------------HHHHHHHHHHHHcCeeEecCCCcccceee
Confidence            222111       112344443   3499999999987             3455666665542     111    2258


Q ss_pred             EEEEEcCCCCCCCccccCCCCCCe-------EEEeCCCCCHHHHHHHH---HHHHhc----CCC-CCCCCHHHHHHhcCC
Q psy450          340 FILGATNRVDLLDPAILRPGRLDK-------SLYVGLYEDRISQLGVL---KAVVRK----FKL-SDDVSLDSLVHHFPS  404 (478)
Q Consensus       340 ~vI~ttn~~~~ld~~l~~~~Rf~~-------~i~~~~pp~~~~r~~il---~~~~~~----~~~-~~~~~~~~la~~~~~  404 (478)
                      -||++||..  |...+. .|+|-.       ++.+.+||-++.+.+|.   .+++++    .+. ....+-+.+.....-
T Consensus       278 RiIaaT~~d--L~~~v~-~G~FReDLyyRLnV~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~~~~~~~s~~a~~~L~~y  354 (464)
T COG2204         278 RIIAATNRD--LEEEVA-AGRFREDLYYRLNVVPLRLPPLRERKEDIPLLAEHFLKRFAAELGRPPKGFSPEALAALLAY  354 (464)
T ss_pred             EEEeecCcC--HHHHHH-cCCcHHHHHhhhccceecCCcccccchhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhC
Confidence            899999974  222222 245443       44555588887777665   444432    211 123334444433323


Q ss_pred             CCCH--HHHHHHHHHHHHH
Q psy450          405 QMSG--ADIYSICSNAWTR  421 (478)
Q Consensus       405 ~~sg--~di~~l~~~a~~~  421 (478)
                      .+.|  +++++++.+++..
T Consensus       355 ~WPGNVREL~N~ver~~il  373 (464)
T COG2204         355 DWPGNVRELENVVERAVIL  373 (464)
T ss_pred             CCChHHHHHHHHHHHHHhc
Confidence            3433  5666666655543

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.13  E-value=1e-09  Score=107.18  Aligned_cols=155  Identities=17%  Similarity=0.162  Sum_probs=108.0

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc------------------EEEEe
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN------------------FLAVK  266 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~------------------~~~v~  266 (478)
                      .|++++|++.+++.|...+..     +.-+.++||+||+|+||+++|.++|+.+-+.                  ++.+.
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~-----~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~   76 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQ-----NRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVE   76 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHh-----CCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEe
Confidence            488999999999999987753     3337789999999999999999999887321                  12222


Q ss_pred             chhhh-hh--------hhc--------chHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHH
Q psy450          267 GPELL-NK--------YIG--------QSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQ  325 (478)
Q Consensus       267 ~~~l~-~~--------~~g--------~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~  325 (478)
                      +.... ++        ..|        -....++++.+.+.    .....|++||++|.+.             ....+.
T Consensus        77 p~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~-------------~~aaNa  143 (314)
T PRK07399         77 PTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMN-------------EAAANA  143 (314)
T ss_pred             ccccccccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcC-------------HHHHHH
Confidence            11000 00        000        01124555544443    2345799999999996             456789


Q ss_pred             HHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          326 LLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       326 ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                      |++.++...   +.++|.+|+.++.+-+.+++  |+ ..+.|+. ++.++..++++...
T Consensus       144 LLK~LEEPp---~~~fILi~~~~~~Ll~TI~S--Rc-q~i~f~~-l~~~~~~~~L~~~~  195 (314)
T PRK07399        144 LLKTLEEPG---NGTLILIAPSPESLLPTIVS--RC-QIIPFYR-LSDEQLEQVLKRLG  195 (314)
T ss_pred             HHHHHhCCC---CCeEEEEECChHhCcHHHHh--hc-eEEecCC-CCHHHHHHHHHHhh
Confidence            999998653   44667778899999999999  98 5777765 67888877877653

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=99.12  E-value=5.3e-10  Score=95.70  Aligned_cols=125  Identities=28%  Similarity=0.426  Sum_probs=80.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc---EEEEechhhhhh--------------hhcchHHHHHHHHHHhHhCCCeE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN---FLAVKGPELLNK--------------YIGQSEENIRNVFLKARSAAPCV  296 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~---~~~v~~~~l~~~--------------~~g~~~~~~~~~~~~a~~~~p~i  296 (478)
                      +.+++|+||||||||++++.++..+...   ++++++......              ............+..+....+.+
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v   81 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDV   81 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCCE
Confidence            4579999999999999999999999775   788877543321              12334556677888888777899


Q ss_pred             EEEcCCccccCCCCCCCCCchhHHHHHHHH--HHhhcCCCCCCCeEEEEEcCC-CCCCCccccCCCCCCeEEEeCC
Q psy450          297 VFFDELDSLAPRRGQEDQSSGVMDRVVSQL--LAEMDGVHTSQDVFILGATNR-VDLLDPAILRPGRLDKSLYVGL  369 (478)
Q Consensus       297 l~iDeid~l~~~~~~~~~~~~~~~~~~~~l--l~~l~~~~~~~~v~vI~ttn~-~~~ld~~l~~~~Rf~~~i~~~~  369 (478)
                      |++||++.+.....         .......  ...........+..+|+++|. ....+..+..  |++..+.+..
T Consensus        82 iiiDei~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~--~~~~~~~~~~  146 (148)
T smart00382       82 LILDEITSLLDAEQ---------EALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR--RFDRRIVLLL  146 (148)
T ss_pred             EEEECCcccCCHHH---------HHHHHhhhhhHHHHHHHhcCCCEEEEEeCCCccCchhhhhh--ccceEEEecC
Confidence            99999999974321         0000000  000011122445778888886 3334445555  8888887754

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.

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.12  E-value=6.7e-10  Score=109.75  Aligned_cols=148  Identities=17%  Similarity=0.165  Sum_probs=104.1

Q ss_pred             CcccccC-cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc----------------------
Q psy450          205 SWEDIGG-LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN----------------------  261 (478)
Q Consensus       205 ~~~~i~g-~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~----------------------  261 (478)
                      .|+.|.| ++.+++.|...+.     .+..++.+||+||+|+||+++|+++++.+-+.                      
T Consensus         3 ~~~~i~~~q~~~~~~L~~~~~-----~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~h   77 (329)
T PRK08058          3 TWEQLTALQPVVVKMLQNSIA-----KNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNH   77 (329)
T ss_pred             cHHHHHhhHHHHHHHHHHHHH-----cCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCC
Confidence            4788888 8889998887764     23447788999999999999999999887331                      


Q ss_pred             --EEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC
Q psy450          262 --FLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT  335 (478)
Q Consensus       262 --~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  335 (478)
                        +..+...   +.  .-.-..++++.+.+.    ....-|++|||+|.+.             ....+.|++.++.  +
T Consensus        78 pD~~~i~~~---~~--~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~-------------~~a~NaLLK~LEE--P  137 (329)
T PRK08058         78 PDVHLVAPD---GQ--SIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMT-------------ASAANSLLKFLEE--P  137 (329)
T ss_pred             CCEEEeccc---cc--cCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhC-------------HHHHHHHHHHhcC--C
Confidence              2222111   00  012234555554443    2334699999999986             4567899999995  4


Q ss_pred             CCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHH
Q psy450          336 SQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLK  381 (478)
Q Consensus       336 ~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~  381 (478)
                      ..++++|.+|+.++.+.+.+++  |+ ..+++.. ++.++...+++
T Consensus       138 p~~~~~Il~t~~~~~ll~TIrS--Rc-~~i~~~~-~~~~~~~~~L~  179 (329)
T PRK08058        138 SGGTTAILLTENKHQILPTILS--RC-QVVEFRP-LPPESLIQRLQ  179 (329)
T ss_pred             CCCceEEEEeCChHhCcHHHHh--hc-eeeeCCC-CCHHHHHHHHH
Confidence            4567777788889999999999  88 5667765 56766655554

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.11  E-value=9.7e-10  Score=107.98  Aligned_cols=131  Identities=20%  Similarity=0.262  Sum_probs=94.4

Q ss_pred             CCCCceEEEeCCCCChHHHHHHHHHHHhCCc------------------------EEEEechhhhhhhhcchHHHHHHHH
Q psy450          231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMN------------------------FLAVKGPELLNKYIGQSEENIRNVF  286 (478)
Q Consensus       231 ~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~------------------------~~~v~~~~l~~~~~g~~~~~~~~~~  286 (478)
                      |..++.+||+||+|+|||++|+++|+.+.+.                        ++.+...+- +  ..-.-..++++.
T Consensus        19 ~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~-~--~~i~id~iR~l~   95 (328)
T PRK05707         19 GRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEA-D--KTIKVDQVRELV   95 (328)
T ss_pred             CCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCC-C--CCCCHHHHHHHH
Confidence            4458889999999999999999999988542                        222221100 0  011334566665


Q ss_pred             HHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCC
Q psy450          287 LKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLD  362 (478)
Q Consensus       287 ~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~  362 (478)
                      +.+.    .+...|++||++|.+.             ....+.|++.++.  +..++++|.+|+.++.+.|.+++  |+.
T Consensus        96 ~~~~~~~~~~~~kv~iI~~a~~m~-------------~~aaNaLLK~LEE--Pp~~~~fiL~t~~~~~ll~TI~S--Rc~  158 (328)
T PRK05707         96 SFVVQTAQLGGRKVVLIEPAEAMN-------------RNAANALLKSLEE--PSGDTVLLLISHQPSRLLPTIKS--RCQ  158 (328)
T ss_pred             HHHhhccccCCCeEEEECChhhCC-------------HHHHHHHHHHHhC--CCCCeEEEEEECChhhCcHHHHh--hce
Confidence            5553    2345699999999997             4678999999996  44678888999999999999999  995


Q ss_pred             eEEEeCCCCCHHHHHHHHHHH
Q psy450          363 KSLYVGLYEDRISQLGVLKAV  383 (478)
Q Consensus       363 ~~i~~~~pp~~~~r~~il~~~  383 (478)
                      . +.|+. |+.++-..+++..
T Consensus       159 ~-~~~~~-~~~~~~~~~L~~~  177 (328)
T PRK05707        159 Q-QACPL-PSNEESLQWLQQA  177 (328)
T ss_pred             e-eeCCC-cCHHHHHHHHHHh
Confidence            4 77775 6777776677643

>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=99.09  E-value=1.7e-10  Score=103.95  Aligned_cols=46  Identities=37%  Similarity=0.590  Sum_probs=36.5

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .|.+|.|++.+|..|.-....        ..|+|++||||||||++|+.+...+
T Consensus         1 Df~dI~GQe~aKrAL~iAAaG--------~h~lLl~GppGtGKTmlA~~l~~lL   46 (206)
T PF01078_consen    1 DFSDIVGQEEAKRALEIAAAG--------GHHLLLIGPPGTGKTMLARRLPSLL   46 (206)
T ss_dssp             -TCCSSSTHHHHHHHHHHHHC--------C--EEEES-CCCTHHHHHHHHHHCS
T ss_pred             ChhhhcCcHHHHHHHHHHHcC--------CCCeEEECCCCCCHHHHHHHHHHhC
Confidence            378999999999988765442        4689999999999999999999866

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.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=99.08  E-value=1.7e-09  Score=106.72  Aligned_cols=191  Identities=18%  Similarity=0.213  Sum_probs=110.7

Q ss_pred             cccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-----hhcc
Q psy450          206 WEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-----YIGQ  277 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-----~~g~  277 (478)
                      +++++|.+...+.+.+.+......    ..+|||+|++||||+++|+++....   +.+|+.++|..+...     .+|.
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~a~~----~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~~~~~~lfg~   80 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRLAPL----DKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGH   80 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHHhCC----CCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHHHHHHHHccc
Confidence            567889888888888877766533    4569999999999999999997655   468999999865321     1121


Q ss_pred             hHH-------HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC--C-------CCCeEE
Q psy450          278 SEE-------NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH--T-------SQDVFI  341 (478)
Q Consensus       278 ~~~-------~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--~-------~~~v~v  341 (478)
                      ...       .....+..+   ....|||||++.|..             .....|+..++.-.  .       ..++.|
T Consensus        81 ~~~~~~g~~~~~~g~l~~a---~gGtL~l~~i~~L~~-------------~~Q~~L~~~l~~~~~~~~g~~~~~~~~~Ri  144 (326)
T PRK11608         81 EAGAFTGAQKRHPGRFERA---DGGTLFLDELATAPM-------------LVQEKLLRVIEYGELERVGGSQPLQVNVRL  144 (326)
T ss_pred             cccccCCcccccCCchhcc---CCCeEEeCChhhCCH-------------HHHHHHHHHHhcCcEEeCCCCceeeccEEE
Confidence            100       011223333   235999999999973             34455555554211  0       125788


Q ss_pred             EEEcCCC-------CCCCccccCCCCCC-eEEEeCCCCCHHHHHHH---HHHHHh----cCCCC--CCCCHHHHHHhcCC
Q psy450          342 LGATNRV-------DLLDPAILRPGRLD-KSLYVGLYEDRISQLGV---LKAVVR----KFKLS--DDVSLDSLVHHFPS  404 (478)
Q Consensus       342 I~ttn~~-------~~ld~~l~~~~Rf~-~~i~~~~pp~~~~r~~i---l~~~~~----~~~~~--~~~~~~~la~~~~~  404 (478)
                      |++|+..       ..+.+.|..  ||. ..|.+  ||-++.+.+|   +..++.    +.+..  ..++-+.+.....-
T Consensus       145 I~~s~~~l~~l~~~g~f~~dL~~--~l~~~~i~l--PpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~al~~L~~y  220 (326)
T PRK11608        145 VCATNADLPAMVAEGKFRADLLD--RLAFDVVQL--PPLRERQSDIMLMAEHFAIQMCRELGLPLFPGFTERARETLLNY  220 (326)
T ss_pred             EEeCchhHHHHHHcCCchHHHHH--hcCCCEEEC--CChhhhhhhHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHhC
Confidence            8888764       234455555  663 34444  5555554443   344432    22211  12222222221112


Q ss_pred             CCCH--HHHHHHHHHHHH
Q psy450          405 QMSG--ADIYSICSNAWT  420 (478)
Q Consensus       405 ~~sg--~di~~l~~~a~~  420 (478)
                      .+.|  ++++++++.|+.
T Consensus       221 ~WPGNvrEL~~vl~~a~~  238 (326)
T PRK11608        221 RWPGNIRELKNVVERSVY  238 (326)
T ss_pred             CCCcHHHHHHHHHHHHHH
Confidence            3433  677777777664

>smart00763 AAA_PrkA PrkA AAA domain

Probab=99.07  E-value=4.3e-09  Score=102.85  Aligned_cols=62  Identities=18%  Similarity=0.304  Sum_probs=51.5

Q ss_pred             cc-cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC-------cEEEEec
Q psy450          206 WE-DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM-------NFLAVKG  267 (478)
Q Consensus       206 ~~-~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~-------~~~~v~~  267 (478)
                      |+ ++.|+++++.++.+.+.......+...+.++|+||||||||++|+++++.++.       +++.+..
T Consensus        49 F~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       49 FDHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             cchhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            45 89999999999998888776544444677899999999999999999999965       7777655

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

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.07  E-value=2.1e-09  Score=106.02  Aligned_cols=149  Identities=23%  Similarity=0.249  Sum_probs=89.2

Q ss_pred             ccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-----hhcchHH
Q psy450          209 IGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-----YIGQSEE  280 (478)
Q Consensus       209 i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-----~~g~~~~  280 (478)
                      ++|.+...+.+.+.+......    ..+|||+|++||||+++|++|....   +.+|+.++|..+...     .+|....
T Consensus         1 liG~S~~m~~~~~~~~~~a~~----~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~~l~~~lfG~~~g   76 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPL----DRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGHEAG   76 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCC----CCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChHHHHHHHhccccc
Confidence            356666666666666555432    4569999999999999999997655   469999999765321     1111100


Q ss_pred             -------HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCeEEEEE
Q psy450          281 -------NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDVFILGA  344 (478)
Q Consensus       281 -------~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~vI~t  344 (478)
                             .....|..+.   .++|||||++.|..             .....|+..++.-.         ...++.+|++
T Consensus        77 ~~~ga~~~~~G~~~~a~---gGtL~Ldei~~L~~-------------~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~a  140 (329)
T TIGR02974        77 AFTGAQKRHQGRFERAD---GGTLFLDELATASL-------------LVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCA  140 (329)
T ss_pred             cccCcccccCCchhhCC---CCEEEeCChHhCCH-------------HHHHHHHHHHHcCcEEecCCCceeccceEEEEe
Confidence                   0112233332   45999999999973             44555555554311         1235788988


Q ss_pred             cCCC-------CCCCccccCCCCCCeEEEeCCCCCHHHHHHHH
Q psy450          345 TNRV-------DLLDPAILRPGRLDKSLYVGLYEDRISQLGVL  380 (478)
Q Consensus       345 tn~~-------~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il  380 (478)
                      |+..       ..+.+.|..  |+. .+.+.+||-++.+.+|.
T Consensus       141 t~~~l~~~~~~g~fr~dL~~--rl~-~~~i~lPpLReR~eDI~  180 (329)
T TIGR02974       141 TNADLPALAAEGRFRADLLD--RLA-FDVITLPPLRERQEDIM  180 (329)
T ss_pred             chhhHHHHhhcCchHHHHHH--Hhc-chhcCCCchhhhhhhHH
Confidence            8864       123344554  553 23455566665444443

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

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=99.07  E-value=2.3e-09  Score=112.36  Aligned_cols=155  Identities=23%  Similarity=0.333  Sum_probs=97.1

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-----
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-----  273 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-----  273 (478)
                      ...+|++++|.+...+.+.+.+......    ...+||+|++||||+++|+++....   +.+|+.++|+.+...     
T Consensus       199 ~~~~f~~~ig~s~~~~~~~~~~~~~A~~----~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~~~~~e~e  274 (520)
T PRK10820        199 DDSAFSQIVAVSPKMRQVVEQARKLAML----DAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDDVVESE  274 (520)
T ss_pred             ccccccceeECCHHHHHHHHHHHHHhCC----CCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCCHHHHHHH
Confidence            4568999999998888777766654332    4459999999999999999986654   468999999776321     


Q ss_pred             hhcchH-------HHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC--CC-------CC
Q psy450          274 YIGQSE-------ENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV--HT-------SQ  337 (478)
Q Consensus       274 ~~g~~~-------~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~--~~-------~~  337 (478)
                      ..|...       .....+|..+.   .+.|||||++.|.+             .....|+..++.-  ..       ..
T Consensus       275 lFG~~~~~~~~~~~~~~g~~e~a~---~GtL~LdeI~~L~~-------------~~Q~~Ll~~l~~~~~~~~g~~~~~~~  338 (520)
T PRK10820        275 LFGHAPGAYPNALEGKKGFFEQAN---GGSVLLDEIGEMSP-------------RMQAKLLRFLNDGTFRRVGEDHEVHV  338 (520)
T ss_pred             hcCCCCCCcCCcccCCCChhhhcC---CCEEEEeChhhCCH-------------HHHHHHHHHHhcCCcccCCCCcceee
Confidence            112110       01112344433   35899999999973             3444555554331  11       12


Q ss_pred             CeEEEEEcCCCC-------CCCccccCCCCCCeEEEeCCCCCHHHHHHH
Q psy450          338 DVFILGATNRVD-------LLDPAILRPGRLDKSLYVGLYEDRISQLGV  379 (478)
Q Consensus       338 ~v~vI~ttn~~~-------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~i  379 (478)
                      ++.||++|+.+-       .+.+.|..  |+.. +.+.+||-++.+.+|
T Consensus       339 ~vRiI~st~~~l~~l~~~g~f~~dL~~--rL~~-~~i~lPpLreR~~Di  384 (520)
T PRK10820        339 DVRVICATQKNLVELVQKGEFREDLYY--RLNV-LTLNLPPLRDRPQDI  384 (520)
T ss_pred             eeEEEEecCCCHHHHHHcCCccHHHHh--hcCe-eEEeCCCcccChhHH
Confidence            577888887642       23444554  6543 556666666555444

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=99.06  E-value=7.2e-09  Score=112.70  Aligned_cols=193  Identities=21%  Similarity=0.259  Sum_probs=114.5

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-----hh
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-----YI  275 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-----~~  275 (478)
                      ..+++++|.+...+.+.+.+......    ..+|||+|++|||||++|++|....   +.+|+.++|..+...     ..
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~a~~----~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~~~~~~~lf  448 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMVAQS----DSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLF  448 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHHhCC----CCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCChhHhhhhhc
Confidence            45788999999998888777765432    4569999999999999999998755   569999999765321     12


Q ss_pred             cchH-------HHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCe
Q psy450          276 GQSE-------ENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDV  339 (478)
Q Consensus       276 g~~~-------~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v  339 (478)
                      |...       ......+..+.   .++|||||++.+..             .....|+..++...         ...++
T Consensus       449 g~~~~~~~g~~~~~~g~le~a~---~GtL~Ldei~~L~~-------------~~Q~~L~~~l~~~~~~~~g~~~~~~~~~  512 (686)
T PRK15429        449 GHERGAFTGASAQRIGRFELAD---KSSLFLDEVGDMPL-------------ELQPKLLRVLQEQEFERLGSNKIIQTDV  512 (686)
T ss_pred             CcccccccccccchhhHHHhcC---CCeEEEechhhCCH-------------HHHHHHHHHHHhCCEEeCCCCCcccceE
Confidence            2110       11122343332   35999999999973             34555555554211         12357


Q ss_pred             EEEEEcCCCC-------CCCccccCCCCCCeEEEeCCCCCHHHHHHH---HHHHHhcC----CCCC-CCC---HHHHHHh
Q psy450          340 FILGATNRVD-------LLDPAILRPGRLDKSLYVGLYEDRISQLGV---LKAVVRKF----KLSD-DVS---LDSLVHH  401 (478)
Q Consensus       340 ~vI~ttn~~~-------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~i---l~~~~~~~----~~~~-~~~---~~~la~~  401 (478)
                      .+|++|+..-       .+.+.+..  |+. .+.+.+||-++.+.+|   ++.++.+.    +... ...   +..|..+
T Consensus       513 RiI~~t~~~l~~~~~~~~f~~~L~~--~l~-~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~~s~~al~~L~~y  589 (686)
T PRK15429        513 RLIAATNRDLKKMVADREFRSDLYY--RLN-VFPIHLPPLRERPEDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLSNM  589 (686)
T ss_pred             EEEEeCCCCHHHHHHcCcccHHHHh--ccC-eeEEeCCChhhhHhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhC
Confidence            8899988642       12222222  332 3455666776655554   34444322    2111 122   3333322


Q ss_pred             cCCCC--CHHHHHHHHHHHHHHH
Q psy450          402 FPSQM--SGADIYSICSNAWTRA  422 (478)
Q Consensus       402 ~~~~~--sg~di~~l~~~a~~~a  422 (478)
                         .+  +-++++++++.|+..+
T Consensus       590 ---~WPGNvrEL~~~i~~a~~~~  609 (686)
T PRK15429        590 ---EWPGNVRELENVIERAVLLT  609 (686)
T ss_pred             ---CCCCcHHHHHHHHHHHHHhC
Confidence               23  3478888888877543

>smart00350 MCM minichromosome maintenance proteins

Probab=99.06  E-value=2.3e-09  Score=112.11  Aligned_cols=160  Identities=24%  Similarity=0.265  Sum_probs=97.5

Q ss_pred             cccCcHHHHHHHHHHHHhhhh---hCCCC---CceEEEeCCCCChHHHHHHHHHHHhCCcEEEE----echhhhhhhhcc
Q psy450          208 DIGGLSKLKAEILSTFRGVNR---TSGLK---RSGLLLYGPPGTGKTLIAKAVATECRMNFLAV----KGPELLNKYIGQ  277 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~---~~~~~---~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v----~~~~l~~~~~g~  277 (478)
                      .+.|++.+|..+.-.+..-..   ..|..   ..++||+|+||||||++|+++++......+..    ++..+.......
T Consensus       204 ~i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~~~~~~  283 (509)
T smart00350      204 SIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAVTRD  283 (509)
T ss_pred             cccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccccceEc
Confidence            468888887776544432110   11111   34799999999999999999999875443221    111121110000


Q ss_pred             h--HH-HH-HHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----------CCCCeEEE
Q psy450          278 S--EE-NI-RNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----------TSQDVFIL  342 (478)
Q Consensus       278 ~--~~-~~-~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~v~vI  342 (478)
                      .  .. .+ ...+.   .....+++|||++.+.+             .....|+..|+.-.           .+.++.||
T Consensus       284 ~~~g~~~~~~G~l~---~A~~Gil~iDEi~~l~~-------------~~q~~L~e~me~~~i~i~k~G~~~~l~~~~~vi  347 (509)
T smart00350      284 PETREFTLEGGALV---LADNGVCCIDEFDKMDD-------------SDRTAIHEAMEQQTISIAKAGITTTLNARCSVL  347 (509)
T ss_pred             cCcceEEecCccEE---ecCCCEEEEechhhCCH-------------HHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEE
Confidence            0  00 00 00111   12235999999999873             33445555554211           13468899


Q ss_pred             EEcCCCC-------------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHh
Q psy450          343 GATNRVD-------------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVR  385 (478)
Q Consensus       343 ~ttn~~~-------------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~  385 (478)
                      +|+|..+             .+++++++  |||..+.+..+|+.+...+|.+..+.
T Consensus       348 Aa~NP~~g~y~~~~~~~~n~~l~~~lLs--RFdLi~~~~d~~~~~~d~~i~~~i~~  401 (509)
T smart00350      348 AAANPIGGRYDPKLTPEENIDLPAPILS--RFDLLFVVLDEVDEERDRELAKHVVD  401 (509)
T ss_pred             EEeCCCCcccCCCcChhhccCCChHHhC--ceeeEEEecCCCChHHHHHHHHHHHH
Confidence            9999652             58999999  99988777666899888888887653

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

Probab=99.06  E-value=1.6e-08  Score=97.36  Aligned_cols=187  Identities=13%  Similarity=0.182  Sum_probs=106.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC-cEE--EE-ec----hhhhhh---hhcc-----hH-H---HHHHHH-HHhHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM-NFL--AV-KG----PELLNK---YIGQ-----SE-E---NIRNVF-LKARSA  292 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~-~~~--~v-~~----~~l~~~---~~g~-----~~-~---~~~~~~-~~a~~~  292 (478)
                      +..++|+||+|+|||++++.+++.+.. .+.  .+ ++    .++...   ..|.     .. .   .+...+ ......
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~~~~  122 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQFAAG  122 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHhCC
Confidence            335889999999999999999998752 222  11 11    111111   1111     11 1   122222 223356


Q ss_pred             CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC---CC----ccccCCCCCCeEE
Q psy450          293 APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL---LD----PAILRPGRLDKSL  365 (478)
Q Consensus       293 ~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~---ld----~~l~~~~Rf~~~i  365 (478)
                      .+.+++|||++.+...          ....+..+.....  .....+.|+.+ ..|+.   +.    ..+.+  |+...+
T Consensus       123 ~~~vliiDe~~~l~~~----------~~~~l~~l~~~~~--~~~~~~~vvl~-g~~~~~~~l~~~~~~~l~~--r~~~~~  187 (269)
T TIGR03015       123 KRALLVVDEAQNLTPE----------LLEELRMLSNFQT--DNAKLLQIFLV-GQPEFRETLQSPQLQQLRQ--RIIASC  187 (269)
T ss_pred             CCeEEEEECcccCCHH----------HHHHHHHHhCccc--CCCCeEEEEEc-CCHHHHHHHcCchhHHHHh--heeeee
Confidence            6789999999988521          0112222221111  11222333333 33321   11    23445  777777


Q ss_pred             EeCCCCCHHHHHHHHHHHHhcCCCC-----CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccc
Q psy450          366 YVGLYEDRISQLGVLKAVVRKFKLS-----DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIV  440 (478)
Q Consensus       366 ~~~~pp~~~~r~~il~~~~~~~~~~-----~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~i  440 (478)
                      .++. .+.++..+++...++..+..     .+..+..+++.+ .|... .|..+|..+...|..+.          ...|
T Consensus       188 ~l~~-l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s-~G~p~-~i~~l~~~~~~~a~~~~----------~~~i  254 (269)
T TIGR03015       188 HLGP-LDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFS-RGIPR-LINILCDRLLLSAFLEE----------KREI  254 (269)
T ss_pred             eCCC-CCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHc-CCccc-HHHHHHHHHHHHHHHcC----------CCCC
Confidence            8875 78888888888877654321     112355666665 77765 59999999988887753          4479


Q ss_pred             cHHHHHhc
Q psy450          441 TMDDFLGA  448 (478)
Q Consensus       441 t~~d~~~A  448 (478)
                      |.+++..+
T Consensus       255 ~~~~v~~~  262 (269)
T TIGR03015       255 GGEEVREV  262 (269)
T ss_pred             CHHHHHHH
Confidence            99999999

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.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=99.05  E-value=2.1e-09  Score=112.65  Aligned_cols=196  Identities=20%  Similarity=0.193  Sum_probs=115.3

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-----hhc
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-----YIG  276 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-----~~g  276 (478)
                      ...+++|.+...+.+.+.+......    +.+|||+|++||||+++|++|....   +.+|+.++|..+...     .+|
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~~----~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~~~e~~lfG  260 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAAS----DLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESLAESELFG  260 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhCC----CCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChHHHHHHhcC
Confidence            4678899999988888887775433    5569999999999999999998775   569999999876321     112


Q ss_pred             chHH-------HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCeE
Q psy450          277 QSEE-------NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDVF  340 (478)
Q Consensus       277 ~~~~-------~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~  340 (478)
                      ....       .....|..+   ..+.|||||++.|..             .....|+..++.-.         ...++.
T Consensus       261 ~~~g~~~ga~~~~~g~~~~a---~gGtL~ldeI~~L~~-------------~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~R  324 (509)
T PRK05022        261 HVKGAFTGAISNRSGKFELA---DGGTLFLDEIGELPL-------------ALQAKLLRVLQYGEIQRVGSDRSLRVDVR  324 (509)
T ss_pred             ccccccCCCcccCCcchhhc---CCCEEEecChhhCCH-------------HHHHHHHHHHhcCCEeeCCCCcceecceE
Confidence            1100       001123333   235899999999973             34555555554311         112578


Q ss_pred             EEEEcCCCC-------CCCccccCCCCCCeEEEeCCCCCHHHHHHHH---HHHHhcC----CC-CCCCCHHHHHHhcCCC
Q psy450          341 ILGATNRVD-------LLDPAILRPGRLDKSLYVGLYEDRISQLGVL---KAVVRKF----KL-SDDVSLDSLVHHFPSQ  405 (478)
Q Consensus       341 vI~ttn~~~-------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il---~~~~~~~----~~-~~~~~~~~la~~~~~~  405 (478)
                      +|++|+..-       .+.+.|..  |+. .+.+.+||-++.+.+|.   +.++++.    +. ....+-+.+.....-.
T Consensus       325 iI~~t~~~l~~~~~~~~f~~dL~~--rl~-~~~i~lPpLreR~eDI~~L~~~fl~~~~~~~~~~~~~~s~~a~~~L~~y~  401 (509)
T PRK05022        325 VIAATNRDLREEVRAGRFRADLYH--RLS-VFPLSVPPLRERGDDVLLLAGYFLEQNRARLGLRSLRLSPAAQAALLAYD  401 (509)
T ss_pred             EEEecCCCHHHHHHcCCccHHHHh--ccc-ccEeeCCCchhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCC
Confidence            899988742       23333333  432 34455566666555443   3444322    11 1122222222211112


Q ss_pred             C--CHHHHHHHHHHHHHHHH
Q psy450          406 M--SGADIYSICSNAWTRAI  423 (478)
Q Consensus       406 ~--sg~di~~l~~~a~~~a~  423 (478)
                      +  +-+++++++..|+..+.
T Consensus       402 WPGNvrEL~~~i~ra~~~~~  421 (509)
T PRK05022        402 WPGNVRELEHVISRAALLAR  421 (509)
T ss_pred             CCCcHHHHHHHHHHHHHhcC
Confidence            3  44788888888876554

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.04  E-value=6.1e-09  Score=110.09  Aligned_cols=128  Identities=29%  Similarity=0.365  Sum_probs=85.2

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh---
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY---  274 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~---  274 (478)
                      .+..+++.++|.+...+.+.+.+......    ..+|||+|++||||+++|++|....   +.+|+.++|..+....   
T Consensus       190 ~~~~~~~~liG~s~~~~~~~~~~~~~a~~----~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~~~~~~  265 (534)
T TIGR01817       190 RRSGKEDGIIGKSPAMRQVVDQARVVARS----NSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLES  265 (534)
T ss_pred             cccCccCceEECCHHHHHHHHHHHHHhCc----CCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCHHHHHH
Confidence            44567899999999999888877766532    4569999999999999999998875   5699999997663211   


Q ss_pred             --hcchHHH-------HHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----C----C
Q psy450          275 --IGQSEEN-------IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----T----S  336 (478)
Q Consensus       275 --~g~~~~~-------~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----~----~  336 (478)
                        +|.....       ....+..+   ...+|||||++.|..             .....|+..++.-.     .    .
T Consensus       266 ~lfg~~~~~~~~~~~~~~g~~~~a---~~GtL~ldei~~L~~-------------~~Q~~Ll~~l~~~~~~~~~~~~~~~  329 (534)
T TIGR01817       266 ELFGHEKGAFTGAIAQRKGRFELA---DGGTLFLDEIGEISP-------------AFQAKLLRVLQEGEFERVGGNRTLK  329 (534)
T ss_pred             HHcCCCCCccCCCCcCCCCccccc---CCCeEEEechhhCCH-------------HHHHHHHHHHhcCcEEECCCCceEe
Confidence              1111000       00112222   346999999999973             34555655554311     0    1


Q ss_pred             CCeEEEEEcCCC
Q psy450          337 QDVFILGATNRV  348 (478)
Q Consensus       337 ~~v~vI~ttn~~  348 (478)
                      .++.+|++|+..
T Consensus       330 ~~~riI~~s~~~  341 (534)
T TIGR01817       330 VDVRLVAATNRD  341 (534)
T ss_pred             ecEEEEEeCCCC
Confidence            247888888764

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.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.03  E-value=2.3e-09  Score=108.43  Aligned_cols=152  Identities=18%  Similarity=0.237  Sum_probs=87.4

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC--cEEEEech-hhhhhhhcch-HHHH-
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM--NFLAVKGP-ELLNKYIGQS-EENI-  282 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~--~~~~v~~~-~l~~~~~g~~-~~~~-  282 (478)
                      .++|.+++++.+...+..        ..++||.||||||||++|++++...+.  +|..+.+. .......|.. -... 
T Consensus        21 ~i~gre~vI~lll~aala--------g~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~fttp~DLfG~l~i~~~~   92 (498)
T PRK13531         21 GLYERSHAIRLCLLAALS--------GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQALK   92 (498)
T ss_pred             hccCcHHHHHHHHHHHcc--------CCCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeecCcHHhcCcHHHhhhh
Confidence            357777777766654321        557999999999999999999997753  34433322 0111222221 0110 


Q ss_pred             -HHHHHHhHhC---CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC--------CCCCeEEEEEcCCCCC
Q psy450          283 -RNVFLKARSA---APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH--------TSQDVFILGATNRVDL  350 (478)
Q Consensus       283 -~~~~~~a~~~---~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~~~v~vI~ttn~~~~  350 (478)
                       ...|.....+   ...++|+|||..+.             ....+.|+..|+.-.        .-+..+++++||....
T Consensus        93 ~~g~f~r~~~G~L~~A~lLfLDEI~ras-------------p~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN~LPE  159 (498)
T PRK13531         93 DEGRYQRLTSGYLPEAEIVFLDEIWKAG-------------PAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNELPE  159 (498)
T ss_pred             hcCchhhhcCCccccccEEeecccccCC-------------HHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCCCcc
Confidence             1122221111   22499999998775             356777777773211        1112345555564321


Q ss_pred             ---CCccccCCCCCCeEEEeCCCCCHHHHHHHHHH
Q psy450          351 ---LDPAILRPGRLDKSLYVGLYEDRISQLGVLKA  382 (478)
Q Consensus       351 ---ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~  382 (478)
                         ..+++..  ||-..+.+++|.+.++..+++..
T Consensus       160 ~g~~leAL~D--RFliri~vp~l~~~~~e~~lL~~  192 (498)
T PRK13531        160 ADSSLEALYD--RMLIRLWLDKVQDKANFRSMLTS  192 (498)
T ss_pred             cCCchHHhHh--hEEEEEECCCCCchHHHHHHHHc
Confidence               2247888  99778888764345665667755

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.03  E-value=2.8e-09  Score=112.87  Aligned_cols=133  Identities=19%  Similarity=0.253  Sum_probs=91.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC--cEEEEechhhhhhhhcchH--HHHH--------HHHHHhHhCCCeEEEEcC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM--NFLAVKGPELLNKYIGQSE--ENIR--------NVFLKARSAAPCVVFFDE  301 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~--~~~~v~~~~l~~~~~g~~~--~~~~--------~~~~~a~~~~p~il~iDe  301 (478)
                      -.++||.|+||||||++|+++++.++.  +|+.+..........|...  ..+.        ..+..   ....+||+||
T Consensus        16 ~g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~idl~~~~~~g~~~~~~G~L~~---A~~GvL~lDE   92 (589)
T TIGR02031        16 LGGVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGIDVEESLAGGQRVTQPGLLDE---APRGVLYVDM   92 (589)
T ss_pred             cceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccchhhhhhhhcCcccCCCCCeee---CCCCcEeccc
Confidence            347999999999999999999998754  5887764222222223210  0000        01111   2235999999


Q ss_pred             CccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----------CCCCeEEEEEcCCCC---CCCccccCCCCCCeEEEe
Q psy450          302 LDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----------TSQDVFILGATNRVD---LLDPAILRPGRLDKSLYV  367 (478)
Q Consensus       302 id~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~v~vI~ttn~~~---~ld~~l~~~~Rf~~~i~~  367 (478)
                      ++.+.             ..+.+.|+..|+.-.           ...++.||+|+|..+   .+++++..  ||...+.+
T Consensus        93 i~rl~-------------~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~Lld--Rf~l~v~~  157 (589)
T TIGR02031        93 ANLLD-------------DGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLD--RLALHVSL  157 (589)
T ss_pred             hhhCC-------------HHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHH--hccCeeec
Confidence            99997             345667777665321           123688999988765   68889999  99998888


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy450          368 GLYEDRISQLGVLKAVV  384 (478)
Q Consensus       368 ~~pp~~~~r~~il~~~~  384 (478)
                      ..++..++|.+|++..+
T Consensus       158 ~~~~~~~er~eil~~~~  174 (589)
T TIGR02031       158 EDVASQDLRVEIVRRER  174 (589)
T ss_pred             CCCCCHHHHHHHHHHHH
Confidence            87778888888887765

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. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>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=99.03  E-value=8e-11  Score=97.28  Aligned_cols=111  Identities=28%  Similarity=0.411  Sum_probs=57.5

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEech-hhh-hhhhcchHHHHH-HHHHHhH-hCCCeEEEEcCCccccCCCCC
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGP-ELL-NKYIGQSEENIR-NVFLKAR-SAAPCVVFFDELDSLAPRRGQ  311 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~-~l~-~~~~g~~~~~~~-~~~~~a~-~~~p~il~iDeid~l~~~~~~  311 (478)
                      |+||+|+||+|||++|+++|+.++..|..+.+. ++. +...|..--... ..|.-.. ..-..|+++||+.+..+    
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPif~~ill~DEiNrapp----   76 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPIFTNILLADEINRAPP----   76 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT-SSEEEEETGGGS-H----
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCCCeeEeecChhhhceeeecccccCCH----
Confidence            689999999999999999999999999988763 232 222221000000 0000000 00014999999988764    


Q ss_pred             CCCCchhHHHHHHHHHHhhcCC---------CCCCCeEEEEEcCCCC-----CCCccccCCCCC
Q psy450          312 EDQSSGVMDRVVSQLLAEMDGV---------HTSQDVFILGATNRVD-----LLDPAILRPGRL  361 (478)
Q Consensus       312 ~~~~~~~~~~~~~~ll~~l~~~---------~~~~~v~vI~ttn~~~-----~ld~~l~~~~Rf  361 (478)
                               ++.+.++..|..-         .-..+++||+|-|..+     .|+++++.  ||
T Consensus        77 ---------ktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~D--RF  129 (131)
T PF07726_consen   77 ---------KTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLD--RF  129 (131)
T ss_dssp             ---------HHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHT--TS
T ss_pred             ---------HHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhc--cc
Confidence                     4556666665431         1245689999999765     46777776  66

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=99.02  E-value=6.3e-09  Score=112.56  Aligned_cols=142  Identities=20%  Similarity=0.163  Sum_probs=103.5

Q ss_pred             eEEEeC--CCCChHHHHHHHHHHHh-----CCcEEEEechhhhhhhhcchHHHHHHHHHHhHhC------CCeEEEEcCC
Q psy450          236 GLLLYG--PPGTGKTLIAKAVATEC-----RMNFLAVKGPELLNKYIGQSEENIRNVFLKARSA------APCVVFFDEL  302 (478)
Q Consensus       236 ~iLl~G--p~GtGKT~la~~la~~~-----~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~------~p~il~iDei  302 (478)
                      +-+..|  |++.||||+|+++|+++     +.+++.+|+++..      ....++++...+...      ...|++|||+
T Consensus       566 ~~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~r------gid~IR~iIk~~a~~~~~~~~~~KVvIIDEa  639 (846)
T PRK04132        566 HNFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDER------GINVIREKVKEFARTKPIGGASFKIIFLDEA  639 (846)
T ss_pred             hhhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcc------cHHHHHHHHHHHHhcCCcCCCCCEEEEEECc
Confidence            346678  99999999999999998     5679999998742      223455555443321      2369999999


Q ss_pred             ccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHH
Q psy450          303 DSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKA  382 (478)
Q Consensus       303 d~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~  382 (478)
                      |.+.             ....+.|+..|+.  ...++.+|++||.++.+.+++++  |+ ..+.|+. ++.++....++.
T Consensus       640 D~Lt-------------~~AQnALLk~lEe--p~~~~~FILi~N~~~kIi~tIrS--RC-~~i~F~~-ls~~~i~~~L~~  700 (846)
T PRK04132        640 DALT-------------QDAQQALRRTMEM--FSSNVRFILSCNYSSKIIEPIQS--RC-AIFRFRP-LRDEDIAKRLRY  700 (846)
T ss_pred             ccCC-------------HHHHHHHHHHhhC--CCCCeEEEEEeCChhhCchHHhh--hc-eEEeCCC-CCHHHHHHHHHH
Confidence            9997             3457888888885  34578899999999999999999  98 5667775 677777777877


Q ss_pred             HHhcCCCC-CCCCHHHHHHhc
Q psy450          383 VVRKFKLS-DDVSLDSLVHHF  402 (478)
Q Consensus       383 ~~~~~~~~-~~~~~~~la~~~  402 (478)
                      .+++.++. ++..+..++..+
T Consensus       701 I~~~Egi~i~~e~L~~Ia~~s  721 (846)
T PRK04132        701 IAENEGLELTEEGLQAILYIA  721 (846)
T ss_pred             HHHhcCCCCCHHHHHHHHHHc
Confidence            77654443 223366666654

>KOG1514|consensus

Probab=99.01  E-value=1.5e-08  Score=104.48  Aligned_cols=204  Identities=21%  Similarity=0.293  Sum_probs=131.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhhh----------hhhcchH------HHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELLN----------KYIGQSE------ENIRNVFL  287 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~~----------~~~g~~~------~~~~~~~~  287 (478)
                      ...+++.|-||||||.+++.+-+++          ...++.+|+-.+.+          .+.|+..      ..+..-|.
T Consensus       422 g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~  501 (767)
T KOG1514|consen  422 GSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEKIWEALSGERVTWDAALEALNFRFT  501 (767)
T ss_pred             ceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHHHHHhcccCcccHHHHHHHHHHhhc
Confidence            3468899999999999999998866          34677777643322          1222221      12223333


Q ss_pred             Hh-HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccC---CCCCC-
Q psy450          288 KA-RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILR---PGRLD-  362 (478)
Q Consensus       288 ~a-~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~---~~Rf~-  362 (478)
                      .. ....++||+|||+|.|..+.          +.+++.++.+-.  ..+.+++||+.+|..+. ++.++-   .+|++ 
T Consensus       502 ~~k~~~~~~VvLiDElD~Lvtr~----------QdVlYn~fdWpt--~~~sKLvvi~IaNTmdl-PEr~l~nrvsSRlg~  568 (767)
T KOG1514|consen  502 VPKPKRSTTVVLIDELDILVTRS----------QDVLYNIFDWPT--LKNSKLVVIAIANTMDL-PERLLMNRVSSRLGL  568 (767)
T ss_pred             cCCCCCCCEEEEeccHHHHhccc----------HHHHHHHhcCCc--CCCCceEEEEecccccC-HHHHhccchhhhccc
Confidence            11 23457999999999999654          567888877654  35678999999998654 333321   23665 


Q ss_pred             eEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHH--HHHHHHHHHHHHHHHHHHhcCCCCCCCCccc
Q psy450          363 KSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGA--DIYSICSNAWTRAIRRIITSAPQVKSAPVIV  440 (478)
Q Consensus       363 ~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~--di~~l~~~a~~~a~~r~~~~~~~~~~~~~~i  440 (478)
                      ..+.|. |.+..+...|+...++....-.. +..+++.+--+..||.  --..+|++|...|-.+....   .......|
T Consensus       569 tRi~F~-pYth~qLq~Ii~~RL~~~~~f~~-~aielvarkVAavSGDaRraldic~RA~Eia~~~~~~~---k~~~~q~v  643 (767)
T KOG1514|consen  569 TRICFQ-PYTHEQLQEIISARLKGLDAFEN-KAIELVARKVAAVSGDARRALDICRRAAEIAEERNVKG---KLAVSQLV  643 (767)
T ss_pred             eeeecC-CCCHHHHHHHHHHhhcchhhcch-hHHHHHHHHHHhccccHHHHHHHHHHHHHHhhhhcccc---ccccccee
Confidence            456666 47999999999999988743222 2444444332556662  22366888887777776411   12234568


Q ss_pred             cHHHHHhchhccCCCcccccc
Q psy450          441 TMDDFLGACSLATAPDKFSQS  461 (478)
Q Consensus       441 t~~d~~~A~~~~~~l~~~~ps  461 (478)
                      ++.|+.+|      +..+..+
T Consensus       644 ~~~~v~~A------i~em~~~  658 (767)
T KOG1514|consen  644 GILHVMEA------INEMLAS  658 (767)
T ss_pred             ehHHHHHH------HHHHhhh
Confidence            99999999      7666544

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=99.01  E-value=1.2e-08  Score=98.79  Aligned_cols=68  Identities=26%  Similarity=0.441  Sum_probs=47.7

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC--CcEEEEechhh
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR--MNFLAVKGPEL  270 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~--~~~~~v~~~~l  270 (478)
                      +....+.++|+.++++..--.+..... .....+++||.||||||||.+|-++|+++|  .||..++++++
T Consensus        19 ~~~~~~GlVGQ~~AReAagiiv~mIk~-~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEi   88 (398)
T PF06068_consen   19 ARYIADGLVGQEKAREAAGIIVDMIKE-GKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEI   88 (398)
T ss_dssp             B-SEETTEES-HHHHHHHHHHHHHHHT-T--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG
T ss_pred             EeeccccccChHHHHHHHHHHHHHHhc-ccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEccccee
Confidence            444567899999999887655554432 222378899999999999999999999996  67777776655

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.00  E-value=1.6e-09  Score=107.15  Aligned_cols=200  Identities=20%  Similarity=0.233  Sum_probs=118.1

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHH----hCCcEEEEechhhhhhhh-
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE----CRMNFLAVKGPELLNKYI-  275 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~----~~~~~~~v~~~~l~~~~~-  275 (478)
                      .....+++++|.+...+.+.+.+....    ....++|++|++||||+.+|+.|...    ...||+.+||+.+..... 
T Consensus        72 ~~~~~~~~LIG~~~~~~~~~eqik~~a----p~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~en~~~  147 (403)
T COG1221          72 LKSEALDDLIGESPSLQELREQIKAYA----PSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQE  147 (403)
T ss_pred             ccchhhhhhhccCHHHHHHHHHHHhhC----CCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhCcCHHH
Confidence            345568899998888887777666521    11556999999999999999999643    356999999987753321 


Q ss_pred             ----cc-------hHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC-----CCC----
Q psy450          276 ----GQ-------SEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG-----VHT----  335 (478)
Q Consensus       276 ----g~-------~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~-----~~~----  335 (478)
                          |.       ....-..+|+.|..   .+||+|||+.+.+             .....++..++.     +..    
T Consensus       148 ~eLFG~~kGaftGa~~~k~Glfe~A~G---GtLfLDEI~~LP~-------------~~Q~kLl~~le~g~~~rvG~~~~~  211 (403)
T COG1221         148 AELFGHEKGAFTGAQGGKAGLFEQANG---GTLFLDEIHRLPP-------------EGQEKLLRVLEEGEYRRVGGSQPR  211 (403)
T ss_pred             HHHhccccceeecccCCcCchheecCC---CEEehhhhhhCCH-------------hHHHHHHHHHHcCceEecCCCCCc
Confidence                11       11122234554433   4999999999974             334455555553     111    


Q ss_pred             CCCeEEEEEcCCC--CCCCc--cccCCCCCCeEEEeCCCCCHHHHHHHH---HHHH----hcCCCCCCCCH----HHHHH
Q psy450          336 SQDVFILGATNRV--DLLDP--AILRPGRLDKSLYVGLYEDRISQLGVL---KAVV----RKFKLSDDVSL----DSLVH  400 (478)
Q Consensus       336 ~~~v~vI~ttn~~--~~ld~--~l~~~~Rf~~~i~~~~pp~~~~r~~il---~~~~----~~~~~~~~~~~----~~la~  400 (478)
                      ..+|.+|++|+..  +.+-.  .+.+ -++...|.  +||-++.+.+|.   ++++    ++.+.......    ..+..
T Consensus       212 ~~dVRli~AT~~~l~~~~~~g~dl~~-rl~~~~I~--LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~L~~  288 (403)
T COG1221         212 PVDVRLICATTEDLEEAVLAGADLTR-RLNILTIT--LPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRALLA  288 (403)
T ss_pred             CCCceeeeccccCHHHHHHhhcchhh-hhcCceec--CCChhhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHh
Confidence            2358888888753  11111  2222 04434444  456665555554   3333    34443333222    22333


Q ss_pred             hcCCCCCHHHHHHHHHHHHHHHHH
Q psy450          401 HFPSQMSGADIYSICSNAWTRAIR  424 (478)
Q Consensus       401 ~~~~~~sg~di~~l~~~a~~~a~~  424 (478)
                      +.-.| +-+++.+++..++..+..
T Consensus       289 y~~pG-NirELkN~Ve~~~~~~~~  311 (403)
T COG1221         289 YDWPG-NIRELKNLVERAVAQASG  311 (403)
T ss_pred             CCCCC-cHHHHHHHHHHHHHHhcc
Confidence            22123 336899999998877643

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.00  E-value=2.9e-09  Score=110.71  Aligned_cols=160  Identities=23%  Similarity=0.301  Sum_probs=100.6

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHH-----------hCCcEEEEechhhhh
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE-----------CRMNFLAVKGPELLN  272 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~-----------~~~~~~~v~~~~l~~  272 (478)
                      ..+++++|.+...+.+.+.+......    ..+|||+|++||||+++|++|.+.           .+.||+.++|..+..
T Consensus       216 ~~f~~iiG~S~~m~~~~~~i~~~A~s----~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaal~e  291 (538)
T PRK15424        216 YVLGDLLGQSPQMEQVRQTILLYARS----SAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGAIAE  291 (538)
T ss_pred             cchhheeeCCHHHHHHHHHHHHHhCC----CCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeecccCCh
Confidence            56889999999999888887765433    456999999999999999999876           356999999976532


Q ss_pred             h-----hhcchHH--------HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----
Q psy450          273 K-----YIGQSEE--------NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----  334 (478)
Q Consensus       273 ~-----~~g~~~~--------~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----  334 (478)
                      .     ..|....        .-..+|+.|.   ...|||||++.|..             .....|+..++.-.     
T Consensus       292 ~lleseLFG~~~gaftga~~~~~~Gl~e~A~---gGTLfLdeI~~Lp~-------------~~Q~kLl~~L~e~~~~r~G  355 (538)
T PRK15424        292 SLLEAELFGYEEGAFTGSRRGGRAGLFEIAH---GGTLFLDEIGEMPL-------------PLQTRLLRVLEEKEVTRVG  355 (538)
T ss_pred             hhHHHHhcCCccccccCccccccCCchhccC---CCEEEEcChHhCCH-------------HHHHHHHhhhhcCeEEecC
Confidence            1     1221111        1112444443   34999999999973             44556666554311     


Q ss_pred             C----CCCeEEEEEcCCCCCCCccccCCCCCCe-------EEEeCCCCCHHHHHHH---HHHHHhc
Q psy450          335 T----SQDVFILGATNRVDLLDPAILRPGRLDK-------SLYVGLYEDRISQLGV---LKAVVRK  386 (478)
Q Consensus       335 ~----~~~v~vI~ttn~~~~ld~~l~~~~Rf~~-------~i~~~~pp~~~~r~~i---l~~~~~~  386 (478)
                      .    ..++.+|++||..-  . .+...|+|..       .+.+.+||-++.+.+|   .+.++++
T Consensus       356 ~~~~~~~dvRiIaat~~~L--~-~~v~~g~Fr~dL~yrL~~~~I~lPPLReR~eDI~~L~~~fl~~  418 (538)
T PRK15424        356 GHQPVPVDVRVISATHCDL--E-EDVRQGRFRRDLFYRLSILRLQLPPLRERVADILPLAESFLKQ  418 (538)
T ss_pred             CCceeccceEEEEecCCCH--H-HHHhcccchHHHHHHhcCCeecCCChhhchhHHHHHHHHHHHH
Confidence            1    12467898888641  1 1112234432       3455567776655544   3555543

>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=99.00  E-value=8.7e-10  Score=97.80  Aligned_cols=120  Identities=23%  Similarity=0.400  Sum_probs=75.8

Q ss_pred             ccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-----hhcchH-
Q psy450          209 IGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-----YIGQSE-  279 (478)
Q Consensus       209 i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-----~~g~~~-  279 (478)
                      |+|.+...+.+.+.+......    +.+|||+|++||||+.+|++|.+..   +.||+.++|+.+...     ..|... 
T Consensus         1 liG~s~~m~~~~~~~~~~a~~----~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~LFG~~~~   76 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASS----DLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESELFGHEKG   76 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTS----TS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHHHHEBCSS
T ss_pred             CEeCCHHHHHHHHHHHHHhCC----CCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhhhhccccc
Confidence            466667777777666655433    5679999999999999999998865   468999999776432     222211 


Q ss_pred             ------HHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC-----CC----CCCeEEEEE
Q psy450          280 ------ENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV-----HT----SQDVFILGA  344 (478)
Q Consensus       280 ------~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~-----~~----~~~v~vI~t  344 (478)
                            .....+|..|..+   +||||||+.|.+             .+...|+..++.-     ..    ..++.||++
T Consensus        77 ~~~~~~~~~~G~l~~A~~G---tL~Ld~I~~L~~-------------~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~s  140 (168)
T PF00158_consen   77 AFTGARSDKKGLLEQANGG---TLFLDEIEDLPP-------------ELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIAS  140 (168)
T ss_dssp             SSTTTSSEBEHHHHHTTTS---EEEEETGGGS-H-------------HHHHHHHHHHHHSEEECCTSSSEEE--EEEEEE
T ss_pred             cccccccccCCceeeccce---EEeecchhhhHH-------------HHHHHHHHHHhhchhccccccccccccceEEee
Confidence                  1122566666555   999999999973             4555565555421     11    226889999


Q ss_pred             cCCC
Q psy450          345 TNRV  348 (478)
Q Consensus       345 tn~~  348 (478)
                      |+.+
T Consensus       141 t~~~  144 (168)
T PF00158_consen  141 TSKD  144 (168)
T ss_dssp             ESS-
T ss_pred             cCcC
Confidence            9863

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 ....

>KOG0742|consensus

Probab=99.00  E-value=1.5e-09  Score=104.76  Aligned_cols=116  Identities=13%  Similarity=0.076  Sum_probs=89.0

Q ss_pred             hhhhHHHHhhhhc-CCCeEEEecccccccch-----------hhHhhhccccccccccccchhhhccCCCcEEEEe----
Q psy450           31 HLNDIVKINLKKY-NLDIFKYDEVNYLCNVK-----------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----   94 (478)
Q Consensus        31 ~~~~if~~~a~~~-~p~ilfiDe~d~i~~~r-----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----   94 (478)
                      ++..+|+ -|++. +--+|||||+|+++-.|           .+|.||=             .+|-.+++-|+|+|    
T Consensus       430 kiH~lFD-WakkS~rGLllFIDEADAFLceRnktymSEaqRsaLNAlLf-------------RTGdqSrdivLvlAtNrp  495 (630)
T KOG0742|consen  430 KIHKLFD-WAKKSRRGLLLFIDEADAFLCERNKTYMSEAQRSALNALLF-------------RTGDQSRDIVLVLATNRP  495 (630)
T ss_pred             HHHHHHH-HHhhcccceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHH-------------HhcccccceEEEeccCCc
Confidence            5778998 77764 46789999999998877           2333220             13446677788888    


Q ss_pred             --eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcC---CC-------------------CC--CChhHHHHHHHhcCC
Q psy450           95 --IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLG---GD-------------------YG--FDASLVEYLSSVTSG  148 (478)
Q Consensus        95 --ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~---~~-------------------~~--~~~~~i~~la~~t~G  148 (478)
                        +|.|+.-|||..|+||+|..+||..+|..|+.++=   ..                   +.  .....+...|+.|+|
T Consensus       496 gdlDsAV~DRide~veFpLPGeEERfkll~lYlnkyi~~~~~~~~~~~~~~lfkk~sQ~i~l~~~~t~~~~~EaAkkTeG  575 (630)
T KOG0742|consen  496 GDLDSAVNDRIDEVVEFPLPGEEERFKLLNLYLNKYILKPATSGKPGKWSHLFKKESQRIKLAGFDTGRKCSEAAKKTEG  575 (630)
T ss_pred             cchhHHHHhhhhheeecCCCChHHHHHHHHHHHHHHhcCcCCCCCCchhhHHHhhhhheeeeccchHHHHHHHHHHhccC
Confidence              99999999999999999999999999999997741   00                   00  113445788999999


Q ss_pred             CCHHHHHHHHHH
Q psy450          149 FERHDLTCLVRL  160 (478)
Q Consensus       149 ~s~~di~~l~~~  160 (478)
                      |||.+|..++-.
T Consensus       576 fSGREiakLva~  587 (630)
T KOG0742|consen  576 FSGREIAKLVAS  587 (630)
T ss_pred             CcHHHHHHHHHH
Confidence            999999998753

>KOG2227|consensus

Probab=99.00  E-value=2.5e-08  Score=98.38  Aligned_cols=232  Identities=17%  Similarity=0.146  Sum_probs=145.6

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----C-CcEEEEechhhhhh--------
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----R-MNFLAVKGPELLNK--------  273 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----~-~~~~~v~~~~l~~~--------  273 (478)
                      ..+.|-+..+..+++++......  ..++++++.|.||||||.+..-+-..+    . ...++++|..+...        
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle~--~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~  227 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLEL--NTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIF  227 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhhc--ccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHH
Confidence            45788888888888887776532  227789999999999999988665443    2 24578888653211        


Q ss_pred             --h-----hcchHHHHHHHHHH-hHhC-CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEE
Q psy450          274 --Y-----IGQSEENIRNVFLK-ARSA-APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGA  344 (478)
Q Consensus       274 --~-----~g~~~~~~~~~~~~-a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~t  344 (478)
                        +     .+.+.......|.. .... .+-++++||+|.|..+.          +.+++++..+-.  ..+.++++||.
T Consensus       228 ~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~----------~~vLy~lFewp~--lp~sr~iLiGi  295 (529)
T KOG2227|consen  228 SSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRS----------QTVLYTLFEWPK--LPNSRIILIGI  295 (529)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcc----------cceeeeehhccc--CCcceeeeeee
Confidence              1     11122222223322 2222 36799999999998432          345566554322  24567999999


Q ss_pred             cCCCCCCCccccC----CCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC--HHHHHHhcCCCCCHHHHHHH---H
Q psy450          345 TNRVDLLDPAILR----PGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS--LDSLVHHFPSQMSGADIYSI---C  415 (478)
Q Consensus       345 tn~~~~ld~~l~~----~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~--~~~la~~~~~~~sg~di~~l---~  415 (478)
                      +|..+.-|..|.+    .+--...+.|++ .+.++..+|++..+.........+  +.-.|+++ .+.|| |++.+   |
T Consensus       296 ANslDlTdR~LprL~~~~~~~P~~l~F~P-YTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKv-aa~SG-DlRkaLdv~  372 (529)
T KOG2227|consen  296 ANSLDLTDRFLPRLNLDLTIKPKLLVFPP-YTKDQIVEILQQRLSEESTSIFLNAAIELCARKV-AAPSG-DLRKALDVC  372 (529)
T ss_pred             hhhhhHHHHHhhhhhhccCCCCceeeecC-CCHHHHHHHHHHHHhcccccccchHHHHHHHHHh-ccCch-hHHHHHHHH
Confidence            9998765544432    223446778875 799999999999888776554433  55566776 67887 77754   5


Q ss_pred             HHHHHHHHHHHHhcCCC------CCCCCccccHHHHHhchhccCCCcccccc
Q psy450          416 SNAWTRAIRRIITSAPQ------VKSAPVIVTMDDFLGACSLATAPDKFSQS  461 (478)
Q Consensus       416 ~~a~~~a~~r~~~~~~~------~~~~~~~it~~d~~~A~~~~~~l~~~~ps  461 (478)
                      +.|...+.........+      .......|-.+|+..+      +.++--+
T Consensus       373 R~aiEI~E~e~r~~~~~~l~~~~~p~~~~~v~~~~va~v------iSk~~~s  418 (529)
T KOG2227|consen  373 RRAIEIAEIEKRKILDDPLSPGTSPEKKKKVGVEHVAAV------ISKVDGS  418 (529)
T ss_pred             HHHHHHHHHHHhhccccCCCCCCCcccccccchHHHHHH------hhhhccC
Confidence            66665555444322111      1122245668899998      6665544

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.00  E-value=2.2e-09  Score=111.74  Aligned_cols=161  Identities=21%  Similarity=0.294  Sum_probs=99.6

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-----h
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-----Y  274 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-----~  274 (478)
                      ...|++++|.+...+.+.+.+......    ..+|||+|++||||+++|++|.+..   +.||+.++|..+...     .
T Consensus       208 ~~~f~~iiG~S~~m~~~~~~i~~~A~~----~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~e~lleseL  283 (526)
T TIGR02329       208 RYRLDDLLGASAPMEQVRALVRLYARS----DATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAESLLEAEL  283 (526)
T ss_pred             ccchhheeeCCHHHHHHHHHHHHHhCC----CCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCChhHHHHHh
Confidence            367899999999998888877665433    4569999999999999999998654   569999999765321     1


Q ss_pred             hcchHH--------HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----C----CC
Q psy450          275 IGQSEE--------NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----T----SQ  337 (478)
Q Consensus       275 ~g~~~~--------~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----~----~~  337 (478)
                      .|....        ....+|+.+.   ...|||||++.|..             .....|+..++.-.     .    ..
T Consensus       284 FG~~~gaftga~~~~~~Gl~e~A~---gGTLfLdeI~~Lp~-------------~~Q~~Ll~~L~~~~~~r~g~~~~~~~  347 (526)
T TIGR02329       284 FGYEEGAFTGARRGGRTGLIEAAH---RGTLFLDEIGEMPL-------------PLQTRLLRVLEEREVVRVGGTEPVPV  347 (526)
T ss_pred             cCCcccccccccccccccchhhcC---CceEEecChHhCCH-------------HHHHHHHHHHhcCcEEecCCCceeee
Confidence            121110        1122344433   34899999999973             44555655554311     1    12


Q ss_pred             CeEEEEEcCCCC--C-----CCccccCCCCCCeEEEeCCCCCHHHHHHHH---HHHHhc
Q psy450          338 DVFILGATNRVD--L-----LDPAILRPGRLDKSLYVGLYEDRISQLGVL---KAVVRK  386 (478)
Q Consensus       338 ~v~vI~ttn~~~--~-----ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il---~~~~~~  386 (478)
                      ++.+|++|+..-  .     +.+.+..  |+. .+.+.+||-++.+.+|.   ..+++.
T Consensus       348 dvRiIaat~~~l~~~v~~g~fr~dL~~--rL~-~~~I~lPPLReR~eDI~~L~~~fl~~  403 (526)
T TIGR02329       348 DVRVVAATHCALTTAVQQGRFRRDLFY--RLS-ILRIALPPLRERPGDILPLAAEYLVQ  403 (526)
T ss_pred             cceEEeccCCCHHHHhhhcchhHHHHH--hcC-CcEEeCCCchhchhHHHHHHHHHHHH
Confidence            457888888642  1     1122222  332 24455566666555443   455543

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.99  E-value=9.5e-09  Score=99.36  Aligned_cols=130  Identities=13%  Similarity=0.137  Sum_probs=95.3

Q ss_pred             HHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccc--------hhhHhhhccccccccccccchhhhccCCCc
Q psy450           18 HLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNV--------KYVYFKLCSFDSVNVKSNETKDQQCKQQHK   89 (478)
Q Consensus        18 ~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~--------r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~   89 (478)
                      .+++.|++++.. +++.+|+ .|   .++||||||+|.+.+.        ..++.++..|+.              ....
T Consensus       100 ~l~~~~~g~~~~-~~~~~~~-~a---~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~--------------~~~~  160 (284)
T TIGR02880       100 DLVGQYIGHTAP-KTKEILK-RA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMEN--------------QRDD  160 (284)
T ss_pred             HHhHhhcccchH-HHHHHHH-Hc---cCcEEEEechhhhccCCCccchHHHHHHHHHHHHhc--------------CCCC
Confidence            456677777654 7788887 55   4699999999998532        256777877873              3345


Q ss_pred             EEEEe------------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhc------CC-CC
Q psy450           90 KKLVL------------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVT------SG-FE  150 (478)
Q Consensus        90 v~via------------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t------~G-~s  150 (478)
                      ++||+            +||+++|||+..|+||.++.+++.+|++.++.+.+..  .+.+.++.+....      +. -+
T Consensus       161 ~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~~~~~--l~~~a~~~L~~~l~~~~~~~~~GN  238 (284)
T TIGR02880       161 LVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKEQQYR--FSAEAEEAFADYIALRRTQPHFAN  238 (284)
T ss_pred             EEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHHhccc--cCHHHHHHHHHHHHHhCCCCCCCh
Confidence            56655            5899999999999999999999999999999887433  3334435554431      22 34


Q ss_pred             HHHHHHHHHHHHHHHHHh
Q psy450          151 RHDLTCLVRLSVKNKMLK  168 (478)
Q Consensus       151 ~~di~~l~~~a~~~a~~~  168 (478)
                      +..+++++..+..+...+
T Consensus       239 ~R~lrn~ve~~~~~~~~r  256 (284)
T TIGR02880       239 ARSIRNAIDRARLRQANR  256 (284)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            889999999998877654

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.

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

Probab=98.99  E-value=3.4e-09  Score=93.65  Aligned_cols=132  Identities=21%  Similarity=0.314  Sum_probs=89.5

Q ss_pred             CcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC-----------------------cEEEEec
Q psy450          211 GLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM-----------------------NFLAVKG  267 (478)
Q Consensus       211 g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~-----------------------~~~~v~~  267 (478)
                      |++.+.+.|...+..     +..|..+||+||+|+||+++|.++|+.+-.                       .++.++.
T Consensus         1 gq~~~~~~L~~~~~~-----~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~   75 (162)
T PF13177_consen    1 GQEEIIELLKNLIKS-----GRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKP   75 (162)
T ss_dssp             S-HHHHHHHHHHHHC-----TC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEET
T ss_pred             CcHHHHHHHHHHHHc-----CCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEec
Confidence            677777777776542     333778999999999999999999997722                       2333332


Q ss_pred             hhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEE
Q psy450          268 PELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILG  343 (478)
Q Consensus       268 ~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~  343 (478)
                      ....   ..-....++.+......    ...-|++||++|.+.             ....+.|++.|+.  +..++.+|.
T Consensus        76 ~~~~---~~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~-------------~~a~NaLLK~LEe--pp~~~~fiL  137 (162)
T PF13177_consen   76 DKKK---KSIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLT-------------EEAQNALLKTLEE--PPENTYFIL  137 (162)
T ss_dssp             TTSS---SSBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS--------------HHHHHHHHHHHHS--TTTTEEEEE
T ss_pred             cccc---chhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhh-------------HHHHHHHHHHhcC--CCCCEEEEE
Confidence            2110   01134566666665532    345699999999997             5678999999995  456788999


Q ss_pred             EcCCCCCCCccccCCCCCCeEEEeC
Q psy450          344 ATNRVDLLDPAILRPGRLDKSLYVG  368 (478)
Q Consensus       344 ttn~~~~ld~~l~~~~Rf~~~i~~~  368 (478)
                      +|+.++.+.+.+++  |+ ..+.++
T Consensus       138 ~t~~~~~il~TI~S--Rc-~~i~~~  159 (162)
T PF13177_consen  138 ITNNPSKILPTIRS--RC-QVIRFR  159 (162)
T ss_dssp             EES-GGGS-HHHHT--TS-EEEEE-
T ss_pred             EECChHHChHHHHh--hc-eEEecC
Confidence            99999999999999  98 455553

...

>TIGR00368 Mg chelatase-related protein

Probab=98.99  E-value=1.2e-08  Score=105.38  Aligned_cols=140  Identities=24%  Similarity=0.320  Sum_probs=85.3

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC-----------------------
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM-----------------------  260 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~-----------------------  260 (478)
                      ..|+++.|++.+++.+.-.+.        ...+++|.||||||||++++.++..+..                       
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa~--------~g~~vlliG~pGsGKTtlar~l~~llp~~~~~~~le~~~i~s~~g~~~~~~  260 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAAA--------GGHNLLLFGPPGSGKTMLASRLQGILPPLTNEEAIETARIWSLVGKLIDRK  260 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhcc--------CCCEEEEEecCCCCHHHHHHHHhcccCCCCCcEEEeccccccchhhhcccc
Confidence            378899999998776654331        1467999999999999999999875421                       


Q ss_pred             -----cEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-
Q psy450          261 -----NFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-  334 (478)
Q Consensus       261 -----~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-  334 (478)
                           ||....++......+|.....-...+..|   ...+|||||++.+.             ..++..|...|+.-. 
T Consensus       261 ~~~~~Pf~~p~~s~s~~~~~ggg~~~~pG~i~lA---~~GvLfLDEi~e~~-------------~~~~~~L~~~LE~~~v  324 (499)
T TIGR00368       261 QIKQRPFRSPHHSASKPALVGGGPIPLPGEISLA---HNGVLFLDELPEFK-------------RSVLDALREPIEDGSI  324 (499)
T ss_pred             ccccCCccccccccchhhhhCCccccchhhhhcc---CCCeEecCChhhCC-------------HHHHHHHHHHHHcCcE
Confidence                 11111111000001111100011123332   23599999999876             345555655554311 


Q ss_pred             ----------CCCCeEEEEEcCCC------C-----------------CCCccccCCCCCCeEEEeCC
Q psy450          335 ----------TSQDVFILGATNRV------D-----------------LLDPAILRPGRLDKSLYVGL  369 (478)
Q Consensus       335 ----------~~~~v~vI~ttn~~------~-----------------~ld~~l~~~~Rf~~~i~~~~  369 (478)
                                ...++.+|+++|.-      .                 .+..+++.  |||..+.++.
T Consensus       325 ~i~r~g~~~~~pa~frlIaa~Npcpcg~~~~~~~~c~c~~~~~~~y~~~is~pllD--R~dl~~~~~~  390 (499)
T TIGR00368       325 SISRASAKIFYPARFQLVAAMNPCPCGHYGGKNTHCRCSPQQISRYWNKLSGPFLD--RIDLSVEVPL  390 (499)
T ss_pred             EEEecCcceeccCCeEEEEecCCcccCcCCCCcccccCCHHHHHHHhhhccHhHHh--hCCEEEEEcC
Confidence                      12468899999852      1                 47778888  9999999985

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=98.98  E-value=7.3e-09  Score=101.83  Aligned_cols=133  Identities=22%  Similarity=0.219  Sum_probs=93.5

Q ss_pred             CCCCceEEEeCCCCChHHHHHHHHHHHhCCcE-------------------------EEEechhhhh-------------
Q psy450          231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMNF-------------------------LAVKGPELLN-------------  272 (478)
Q Consensus       231 ~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~-------------------------~~v~~~~l~~-------------  272 (478)
                      +..++++||+||+|+||+++|+.+|+.+.+..                         ..+.......             
T Consensus        18 ~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~~~~~~~~~~~~~   97 (342)
T PRK06964         18 ARLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAEAPGAADEAKEAD   97 (342)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccccccccccccch
Confidence            43488999999999999999999999874421                         1121110000             


Q ss_pred             -hhhc---------chHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCC
Q psy450          273 -KYIG---------QSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD  338 (478)
Q Consensus       273 -~~~g---------~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  338 (478)
                       .-.|         -.-..++.+.+.+.    .+...|++||++|.+.             ....|.||+.+++  +..+
T Consensus        98 ~~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~-------------~~AaNaLLKtLEE--Pp~~  162 (342)
T PRK06964         98 ADEGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGARVVVLYPAEALN-------------VAAANALLKTLEE--PPPG  162 (342)
T ss_pred             hhcccccccccccccCHHHHHHHHHHhccCCccCCceEEEEechhhcC-------------HHHHHHHHHHhcC--CCcC
Confidence             0000         12245565555442    2334699999999997             4678999999994  5677


Q ss_pred             eEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHH
Q psy450          339 VFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKA  382 (478)
Q Consensus       339 v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~  382 (478)
                      +++|.+|++|+.+.|.++|  |+ ..+.++. |+.++...+|..
T Consensus       163 t~fiL~t~~~~~LLpTI~S--Rc-q~i~~~~-~~~~~~~~~L~~  202 (342)
T PRK06964        163 TVFLLVSARIDRLLPTILS--RC-RQFPMTV-PAPEAAAAWLAA  202 (342)
T ss_pred             cEEEEEECChhhCcHHHHh--cC-EEEEecC-CCHHHHHHHHHH
Confidence            8899999999999999999  99 5778875 677777777754

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.97  E-value=1.2e-08  Score=107.72  Aligned_cols=226  Identities=13%  Similarity=0.120  Sum_probs=123.7

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEE-Eechh--------
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLA-VKGPE--------  269 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~-v~~~~--------  269 (478)
                      ..+.+..+++++|+++..+.+..++...... ..+...++|+||||||||++++.+|+.++..+.. .+...        
T Consensus        76 eKyrP~~ldel~~~~~ki~~l~~~l~~~~~~-~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~npv~~~~~~~~~  154 (637)
T TIGR00602        76 EKYKPETQHELAVHKKKIEEVETWLKAQVLE-NAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQKNDH  154 (637)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHhcccc-cCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHhhhhhhccccccc
Confidence            3456778999999999999888877654321 1113448999999999999999999998765433 11110        


Q ss_pred             -----hhhh--hhcchHHHHHHHHHHhH----------hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHH-hhc
Q psy450          270 -----LLNK--YIGQSEENIRNVFLKAR----------SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLA-EMD  331 (478)
Q Consensus       270 -----l~~~--~~g~~~~~~~~~~~~a~----------~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~-~l~  331 (478)
                           +...  ........+..++..+.          .....||+|||++.+....          ...+..++. ...
T Consensus       155 ~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r~----------~~~lq~lLr~~~~  224 (637)
T TIGR00602       155 KVTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYRD----------TRALHEILRWKYV  224 (637)
T ss_pred             ccchhhhhccccccchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchhh----------HHHHHHHHHHHhh
Confidence                 0000  00112233444555443          1345799999999876321          123444444 221


Q ss_pred             CCCCCCCeEEEEEcC-CCC--------------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCC--CCC--
Q psy450          332 GVHTSQDVFILGATN-RVD--------------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKL--SDD--  392 (478)
Q Consensus       332 ~~~~~~~v~vI~ttn-~~~--------------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~--~~~--  392 (478)
                         ....+.+|++++ .|.              .+.+++++..|. ..|.|.. .......+.|+..+.....  ..+  
T Consensus       225 ---e~~~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv-~~I~FnP-ia~t~l~K~L~rIl~~E~~~~~~~~~  299 (637)
T TIGR00602       225 ---SIGRCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRV-SNISFNP-IAPTIMKKFLNRIVTIEAKKNGEKIK  299 (637)
T ss_pred             ---cCCCceEEEEecCCccccccccccccchhcccCHhHhcccce-eEEEeCC-CCHHHHHHHHHHHHHhhhhccccccc
Confidence               123333444333 222              133677753344 3567764 6777766666666654321  111  


Q ss_pred             ----CCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          393 ----VSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       393 ----~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                          ..+..++.     .+++|++.++......+.+..   .-........++..|...+
T Consensus       300 ~p~~~~l~~I~~-----~s~GDiRsAIn~LQf~~~~~g---~~a~~~~~~~vs~~hv~~a  351 (637)
T TIGR00602       300 VPKKTSVELLCQ-----GCSGDIRSAINSLQFSSSKSG---SLPIKKRMSTKSDAHASKS  351 (637)
T ss_pred             cCCHHHHHHHHH-----hCCChHHHHHHHHHHHHhcCC---ccccccccccccHHHhhhc
Confidence                12444444     345699887766554443220   0001122345666777777

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

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.96  E-value=1.8e-08  Score=108.89  Aligned_cols=126  Identities=21%  Similarity=0.323  Sum_probs=82.8

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhh-----hh
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLN-----KY  274 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~-----~~  274 (478)
                      ..+|++++|.+...+.+.+.+......    ..+|||+|++||||+++|+++.+..   +.+|+.++|..+..     ..
T Consensus       321 ~~~~~~l~g~s~~~~~~~~~~~~~a~~----~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~~~~~el  396 (638)
T PRK11388        321 SHTFDHMPQDSPQMRRLIHFGRQAAKS----SFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEALAEEF  396 (638)
T ss_pred             cccccceEECCHHHHHHHHHHHHHhCc----CCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChHHHHHHh
Confidence            456889999988888887777665433    4459999999999999999998765   46999999976531     12


Q ss_pred             hcch----HHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----C----CCCeEE
Q psy450          275 IGQS----EENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----T----SQDVFI  341 (478)
Q Consensus       275 ~g~~----~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----~----~~~v~v  341 (478)
                      .|..    .......|..|   ..++|||||++.|..             .....|+..++.-.     .    .-++.+
T Consensus       397 fg~~~~~~~~~~~g~~~~a---~~GtL~ldei~~l~~-------------~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~ri  460 (638)
T PRK11388        397 LGSDRTDSENGRLSKFELA---HGGTLFLEKVEYLSP-------------ELQSALLQVLKTGVITRLDSRRLIPVDVRV  460 (638)
T ss_pred             cCCCCcCccCCCCCceeEC---CCCEEEEcChhhCCH-------------HHHHHHHHHHhcCcEEeCCCCceEEeeEEE
Confidence            2211    00000122222   346999999999973             34455555554211     0    115778


Q ss_pred             EEEcCCC
Q psy450          342 LGATNRV  348 (478)
Q Consensus       342 I~ttn~~  348 (478)
                      |+||+..
T Consensus       461 I~~t~~~  467 (638)
T PRK11388        461 IATTTAD  467 (638)
T ss_pred             EEeccCC
Confidence            9888864

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.95  E-value=1.2e-08  Score=96.62  Aligned_cols=60  Identities=28%  Similarity=0.416  Sum_probs=48.5

Q ss_pred             cccCcHHHHHHHHHHHHhhhhh--------CCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEec
Q psy450          208 DIGGLSKLKAEILSTFRGVNRT--------SGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG  267 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~--------~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~  267 (478)
                      .|+|++++|+.+.-++..-.++        ....|++||..||+|+|||.+||.+|+-.+.||+.+..
T Consensus        16 yIIGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVEA   83 (444)
T COG1220          16 YIIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEA   83 (444)
T ss_pred             HhcCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCeEEEEe
Confidence            4789999999887666554222        23348999999999999999999999999999988754

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.94  E-value=1.5e-08  Score=99.00  Aligned_cols=129  Identities=20%  Similarity=0.307  Sum_probs=91.6

Q ss_pred             CCCCceEEEeCCCCChHHHHHHHHHHHhCCc------------------------EEEEechhhhhhhhcchHHHHHHHH
Q psy450          231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMN------------------------FLAVKGPELLNKYIGQSEENIRNVF  286 (478)
Q Consensus       231 ~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~------------------------~~~v~~~~l~~~~~g~~~~~~~~~~  286 (478)
                      +..++++||+||+|+||+++|+.+|+.+-+.                        ++.+...+  ++  .-....++++.
T Consensus        21 ~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~--~~--~I~id~iR~l~   96 (325)
T PRK06871         21 GLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPID--NK--DIGVDQVREIN   96 (325)
T ss_pred             CCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEcccc--CC--CCCHHHHHHHH
Confidence            3447889999999999999999999987331                        22222100  00  11344566655


Q ss_pred             HHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCC
Q psy450          287 LKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLD  362 (478)
Q Consensus       287 ~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~  362 (478)
                      +.+.    .+..-|++||++|.+.             ....+.|++.++.  +..++++|.+|+.++.+.|.+++  |+ 
T Consensus        97 ~~~~~~~~~g~~KV~iI~~a~~m~-------------~~AaNaLLKtLEE--Pp~~~~fiL~t~~~~~llpTI~S--RC-  158 (325)
T PRK06871         97 EKVSQHAQQGGNKVVYIQGAERLT-------------EAAANALLKTLEE--PRPNTYFLLQADLSAALLPTIYS--RC-  158 (325)
T ss_pred             HHHhhccccCCceEEEEechhhhC-------------HHHHHHHHHHhcC--CCCCeEEEEEECChHhCchHHHh--hc-
Confidence            4443    2344699999999997             4678999999995  56678888899999999999999  98 


Q ss_pred             eEEEeCCCCCHHHHHHHHHH
Q psy450          363 KSLYVGLYEDRISQLGVLKA  382 (478)
Q Consensus       363 ~~i~~~~pp~~~~r~~il~~  382 (478)
                      ..+.++. |+.++....|..
T Consensus       159 ~~~~~~~-~~~~~~~~~L~~  177 (325)
T PRK06871        159 QTWLIHP-PEEQQALDWLQA  177 (325)
T ss_pred             eEEeCCC-CCHHHHHHHHHH
Confidence            4556764 567776666654

>KOG0744|consensus

Probab=98.93  E-value=4e-09  Score=99.18  Aligned_cols=153  Identities=17%  Similarity=0.167  Sum_probs=116.6

Q ss_pred             HHHHHhhccCccchhhhhHHHHhhhhc-----CCCeEEEecccccccch--------------hhHhhhccccccccccc
Q psy450           17 SHLLTNYFATPRYHHLNDIVKINLKKY-----NLDIFKYDEVNYLCNVK--------------YVYFKLCSFDSVNVKSN   77 (478)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~if~~~a~~~-----~p~ilfiDe~d~i~~~r--------------~~~~~l~~~d~~~~~~~   77 (478)
                      ++++|++|.+... .+..+|+ ...+.     .-.-+.|||+++|+..|              +||.+|++||.+     
T Consensus       220 hsLFSKWFsESgK-lV~kmF~-kI~ELv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrl-----  292 (423)
T KOG0744|consen  220 HSLFSKWFSESGK-LVAKMFQ-KIQELVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRL-----  292 (423)
T ss_pred             hHHHHHHHhhhhh-HHHHHHH-HHHHHHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHh-----
Confidence            5789999999988 8999998 66542     22345689999999887              899999999976     


Q ss_pred             cchhhhccCCCcEEEEe-------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhc---C----CCCC----CChh--
Q psy450           78 ETKDQQCKQQHKKKLVL-------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCL---G----GDYG----FDAS--  137 (478)
Q Consensus        78 ~~~~~~~~~~~~v~via-------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~---~----~~~~----~~~~--  137 (478)
                             ...++|++++       +|-|+.-|-|.+.+++.|+...|.+|++..+..+   +    ....    ....  
T Consensus       293 -------K~~~NvliL~TSNl~~siD~AfVDRADi~~yVG~Pt~~ai~~IlkscieEL~~~gIi~~~~~s~~~~~~i~~~  365 (423)
T KOG0744|consen  293 -------KRYPNVLILATSNLTDSIDVAFVDRADIVFYVGPPTAEAIYEILKSCIEELISSGIILFHQRSTGVKEFIKYQ  365 (423)
T ss_pred             -------ccCCCEEEEeccchHHHHHHHhhhHhhheeecCCccHHHHHHHHHHHHHHHHhcCeeeeeccchhhhHHhHhh
Confidence                   5678899999       9999999999999999999999999999988663   0    0100    0011  


Q ss_pred             --HHHHHHHh-cCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          138 --LVEYLSSV-TSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       138 --~i~~la~~-t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                        ....+... +.|.||.-++.+---|..+..     ...+++..+|..++..-
T Consensus       366 ~~~~~~~~~~~~~gLSGRtlrkLP~Laha~y~-----~~~~v~~~~fl~al~ea  414 (423)
T KOG0744|consen  366 KALRNILIELSTVGLSGRTLRKLPLLAHAEYF-----RTFTVDLSNFLLALLEA  414 (423)
T ss_pred             HhHHHHHHHHhhcCCccchHhhhhHHHHHhcc-----CCCccChHHHHHHHHHH
Confidence              11223333 589999999998776665544     45789999998887654

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.92  E-value=1.6e-08  Score=96.95  Aligned_cols=128  Identities=10%  Similarity=0.099  Sum_probs=91.0

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEeccccccc-------chhhHhhhccccccccccccchhhhccCCCcEE
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCN-------VKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKK   91 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~-------~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~   91 (478)
                      +++.|++++.. +++.+|+ .|.   ++||||||+|.|..       ...++.++..|+.              ....++
T Consensus        85 l~~~~~g~~~~-~~~~~~~-~a~---~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~--------------~~~~~~  145 (261)
T TIGR02881        85 LVGEYIGHTAQ-KTREVIK-KAL---GGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMED--------------NRNEFV  145 (261)
T ss_pred             hhhhhccchHH-HHHHHHH-hcc---CCEEEEechhhhccCCccchHHHHHHHHHHHHhc--------------cCCCEE
Confidence            56677777654 7888887 553   68999999999874       2256777777773              233344


Q ss_pred             EEe------------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHh---------cCCCC
Q psy450           92 LVL------------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSV---------TSGFE  150 (478)
Q Consensus        92 via------------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~---------t~G~s  150 (478)
                      +|.            ++|++++||+..|+|+.++.+++.+|++.++...+..  .+.+.++.+++.         ...-+
T Consensus       146 vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~~~~~--l~~~a~~~l~~~~~~~~~~~~~~~gn  223 (261)
T TIGR02881       146 LILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVKEREYK--LTEEAKWKLREHLYKVDQLSSREFSN  223 (261)
T ss_pred             EEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHHHcCCc--cCHHHHHHHHHHHHHHHhccCCCCch
Confidence            433            6899999999999999999999999999999876333  333333555432         12346


Q ss_pred             HHHHHHHHHHHHHHHHH
Q psy450          151 RHDLTCLVRLSVKNKML  167 (478)
Q Consensus       151 ~~di~~l~~~a~~~a~~  167 (478)
                      +..+++++..|..+...
T Consensus       224 ~R~~~n~~e~a~~~~~~  240 (261)
T TIGR02881       224 ARYVRNIIEKAIRRQAV  240 (261)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            77888888887776653

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.

>PRK12377 putative replication protein; Provisional

Probab=98.91  E-value=1.3e-08  Score=95.78  Aligned_cols=131  Identities=15%  Similarity=0.159  Sum_probs=77.5

Q ss_pred             CCCCCCccccc----CcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhh
Q psy450          200 SVPNVSWEDIG----GLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLN  272 (478)
Q Consensus       200 ~~~~~~~~~i~----g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~  272 (478)
                      .....+|+++.    |...+......++.....    ...+++|+||||||||++|.++++.+   +..+++++..++..
T Consensus        67 ~~~~~tFdnf~~~~~~~~~a~~~a~~~a~~~~~----~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~  142 (248)
T PRK12377         67 LHRKCSFANYQVQNDGQRYALSQAKSIADELMT----GCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMS  142 (248)
T ss_pred             ccccCCcCCcccCChhHHHHHHHHHHHHHHHHh----cCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHH
Confidence            34555676664    333344444444443321    24679999999999999999999987   67788888888766


Q ss_pred             hhhcch--HHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          273 KYIGQS--EENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       273 ~~~g~~--~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                      ......  ......++...  ....+|+|||+.....        +.+...++..++..-.    ....-+|.|||..
T Consensus       143 ~l~~~~~~~~~~~~~l~~l--~~~dLLiIDDlg~~~~--------s~~~~~~l~~ii~~R~----~~~~ptiitSNl~  206 (248)
T PRK12377        143 RLHESYDNGQSGEKFLQEL--CKVDLLVLDEIGIQRE--------TKNEQVVLNQIIDRRT----ASMRSVGMLTNLN  206 (248)
T ss_pred             HHHHHHhccchHHHHHHHh--cCCCEEEEcCCCCCCC--------CHHHHHHHHHHHHHHH----hcCCCEEEEcCCC
Confidence            432110  00112334443  3446999999976532        1223445555554432    1223367788864

>PRK08116 hypothetical protein; Validated

Probab=98.89  E-value=1.2e-08  Score=97.60  Aligned_cols=110  Identities=23%  Similarity=0.313  Sum_probs=67.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhcc----hHHHHHHHHHHhHhCCCeEEEEcCCcccc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIGQ----SEENIRNVFLKARSAAPCVVFFDELDSLA  306 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g~----~~~~~~~~~~~a~~~~p~il~iDeid~l~  306 (478)
                      +.+++|+|++|||||+||.++++++   +.++++++.+++.......    .......+++...  ...+|+|||+....
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l~--~~dlLviDDlg~e~  191 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKSTYKSSGKEDENEIIRSLV--NADLLILDDLGAER  191 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhccccccHHHHHHHhc--CCCEEEEecccCCC
Confidence            4579999999999999999999986   7889999988876553211    1112223443333  23599999986432


Q ss_pred             CCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC-CC----CCccccC
Q psy450          307 PRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV-DL----LDPAILR  357 (478)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~-~~----ld~~l~~  357 (478)
                      .        +.+....+..++....    ..+..+|.|||.+ ..    ++..+.+
T Consensus       192 ~--------t~~~~~~l~~iin~r~----~~~~~~IiTsN~~~~eL~~~~~~ri~s  235 (268)
T PRK08116        192 D--------TEWAREKVYNIIDSRY----RKGLPTIVTTNLSLEELKNQYGKRIYD  235 (268)
T ss_pred             C--------CHHHHHHHHHHHHHHH----HCCCCEEEECCCCHHHHHHHHhHHHHH
Confidence            1        2222333444444321    1223477788865 22    4555655

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.88  E-value=3.6e-08  Score=92.60  Aligned_cols=133  Identities=17%  Similarity=0.174  Sum_probs=79.0

Q ss_pred             CCCCCcccccC-cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhc
Q psy450          201 VPNVSWEDIGG-LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIG  276 (478)
Q Consensus       201 ~~~~~~~~i~g-~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g  276 (478)
                      ....+|+++.. .+..+..+..+....... .....+++|+|+||||||+++.++++.+   +..++.++.+++......
T Consensus        66 ~~~~tFdnf~~~~~~q~~al~~a~~~~~~~-~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l~~  144 (244)
T PRK07952         66 HQNCSFENYRVECEGQMNALSKARQYVEEF-DGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAMKD  144 (244)
T ss_pred             ccCCccccccCCCchHHHHHHHHHHHHHhh-ccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHHHH
Confidence            44567777643 223333333322222111 1113579999999999999999999988   778888998888754332


Q ss_pred             c---hHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          277 Q---SEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       277 ~---~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                      .   .......+++...  ..++|+|||++....        +.+...++..++..-.    ..+..+|.|||..
T Consensus       145 ~~~~~~~~~~~~l~~l~--~~dlLvIDDig~~~~--------s~~~~~~l~~Ii~~Ry----~~~~~tiitSNl~  205 (244)
T PRK07952        145 TFSNSETSEEQLLNDLS--NVDLLVIDEIGVQTE--------SRYEKVIINQIVDRRS----SSKRPTGMLTNSN  205 (244)
T ss_pred             HHhhccccHHHHHHHhc--cCCEEEEeCCCCCCC--------CHHHHHHHHHHHHHHH----hCCCCEEEeCCCC
Confidence            1   1112233444433  457999999987642        2233456666665422    2234477788864

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.88  E-value=1.6e-08  Score=99.61  Aligned_cols=129  Identities=18%  Similarity=0.220  Sum_probs=91.5

Q ss_pred             CCCCceEEEeCCCCChHHHHHHHHHHHhCCc------------------------EEEEechhhhhhhhcchHHHHHHHH
Q psy450          231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMN------------------------FLAVKGPELLNKYIGQSEENIRNVF  286 (478)
Q Consensus       231 ~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~------------------------~~~v~~~~l~~~~~g~~~~~~~~~~  286 (478)
                      +..+..+||+||+|+||+++|.++|..+-+.                        +..+....- .  ..-....++.+.
T Consensus        21 ~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~-~--~~I~idqiR~l~   97 (334)
T PRK07993         21 GRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKG-K--SSLGVDAVREVT   97 (334)
T ss_pred             CCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccc-c--ccCCHHHHHHHH
Confidence            3448889999999999999999999887331                        222221100 0  001233455555


Q ss_pred             HHh----HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCC
Q psy450          287 LKA----RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLD  362 (478)
Q Consensus       287 ~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~  362 (478)
                      +.+    ..+...|++||++|.+.             ....|.|++.+++  +..+.++|.+|+.++.+.|.++|  |+.
T Consensus        98 ~~~~~~~~~g~~kV~iI~~ae~m~-------------~~AaNaLLKtLEE--Pp~~t~fiL~t~~~~~lLpTIrS--RCq  160 (334)
T PRK07993         98 EKLYEHARLGGAKVVWLPDAALLT-------------DAAANALLKTLEE--PPENTWFFLACREPARLLATLRS--RCR  160 (334)
T ss_pred             HHHhhccccCCceEEEEcchHhhC-------------HHHHHHHHHHhcC--CCCCeEEEEEECChhhChHHHHh--ccc
Confidence            444    33445799999999997             4678999999995  56678899999999999999999  997


Q ss_pred             eEEEeCCCCCHHHHHHHHH
Q psy450          363 KSLYVGLYEDRISQLGVLK  381 (478)
Q Consensus       363 ~~i~~~~pp~~~~r~~il~  381 (478)
                       .+.++. |+.++....+.
T Consensus       161 -~~~~~~-~~~~~~~~~L~  177 (334)
T PRK07993        161 -LHYLAP-PPEQYALTWLS  177 (334)
T ss_pred             -cccCCC-CCHHHHHHHHH
Confidence             467775 56766666664

>KOG0745|consensus

Probab=98.88  E-value=1e-08  Score=99.97  Aligned_cols=98  Identities=32%  Similarity=0.556  Sum_probs=73.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh-hhhcch-HHHHHHHHHHhH----hCCCeEEEEcCCccccC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN-KYIGQS-EENIRNVFLKAR----SAAPCVVFFDELDSLAP  307 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~-~~~g~~-~~~~~~~~~~a~----~~~p~il~iDeid~l~~  307 (478)
                      ..++||.||+|+|||.||+.+|+.++.||...+|..+.. .|+|+. +..+..++..|.    +....|+||||+|++..
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~  305 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITK  305 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhcc
Confidence            567999999999999999999999999999999988863 477775 445666766652    33446999999999984


Q ss_pred             CCCCCC---CCchhHHHHHHHHHHhhcCC
Q psy450          308 RRGQED---QSSGVMDRVVSQLLAEMDGV  333 (478)
Q Consensus       308 ~~~~~~---~~~~~~~~~~~~ll~~l~~~  333 (478)
                      ...+-.   +.++  +-+...||+.++|.
T Consensus       306 ~~~~i~~~RDVsG--EGVQQaLLKllEGt  332 (564)
T KOG0745|consen  306 KAESIHTSRDVSG--EGVQQALLKLLEGT  332 (564)
T ss_pred             cCccccccccccc--hhHHHHHHHHhccc
Confidence            432211   1122  45778888888763

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=98.85  E-value=4.7e-08  Score=95.20  Aligned_cols=144  Identities=17%  Similarity=0.198  Sum_probs=98.0

Q ss_pred             cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC-----------------------cEEEEech
Q psy450          212 LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM-----------------------NFLAVKGP  268 (478)
Q Consensus       212 ~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~-----------------------~~~~v~~~  268 (478)
                      +....+++...+.     .+.-+..+||+||.|+||+++|+.+|+.+-+                       .++.+...
T Consensus         8 l~~~~~~l~~~~~-----~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~   82 (319)
T PRK06090          8 LVPVWQNWKAGLD-----AGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPE   82 (319)
T ss_pred             HHHHHHHHHHHHH-----cCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecC
Confidence            3445555554432     2334788999999999999999999987732                       12223221


Q ss_pred             hhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEE
Q psy450          269 ELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGA  344 (478)
Q Consensus       269 ~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~t  344 (478)
                      . .++  .-....++.+.+.+.    .+...|++||++|.+.             ....|.|++.+++  +..++++|.+
T Consensus        83 ~-~~~--~I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~-------------~~AaNaLLKtLEE--Pp~~t~fiL~  144 (319)
T PRK06090         83 K-EGK--SITVEQIRQCNRLAQESSQLNGYRLFVIEPADAMN-------------ESASNALLKTLEE--PAPNCLFLLV  144 (319)
T ss_pred             c-CCC--cCCHHHHHHHHHHHhhCcccCCceEEEecchhhhC-------------HHHHHHHHHHhcC--CCCCeEEEEE
Confidence            0 000  012334555544432    2335699999999997             4677999999995  5567888999


Q ss_pred             cCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHH
Q psy450          345 TNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKA  382 (478)
Q Consensus       345 tn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~  382 (478)
                      |+.++.+.|.++|  |+. .+.++. |+.++..+++..
T Consensus       145 t~~~~~lLpTI~S--RCq-~~~~~~-~~~~~~~~~L~~  178 (319)
T PRK06090        145 THNQKRLLPTIVS--RCQ-QWVVTP-PSTAQAMQWLKG  178 (319)
T ss_pred             ECChhhChHHHHh--cce-eEeCCC-CCHHHHHHHHHH
Confidence            9999999999999  984 667775 677777666653

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.85  E-value=3.6e-08  Score=96.14  Aligned_cols=146  Identities=21%  Similarity=0.251  Sum_probs=95.5

Q ss_pred             cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc---------------------EEEEe-chh
Q psy450          212 LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN---------------------FLAVK-GPE  269 (478)
Q Consensus       212 ~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~---------------------~~~v~-~~~  269 (478)
                      +..+.+.+...+.     .+.-+..+||+||+|+||+++|.++|+.+-+.                     +..+. .++
T Consensus         9 ~~~~~~~l~~~~~-----~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~   83 (319)
T PRK08769          9 QQRAYDQTVAALD-----AGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPN   83 (319)
T ss_pred             HHHHHHHHHHHHH-----cCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCC
Confidence            3444555554432     23347789999999999999999999877331                     22221 000


Q ss_pred             hhhh--hhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEE
Q psy450          270 LLNK--YIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILG  343 (478)
Q Consensus       270 l~~~--~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~  343 (478)
                      -.+.  ...-....++++.+.+..    +..-|++||++|.+.             ....|.|++.++.  +..++++|.
T Consensus        84 ~~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~-------------~~AaNaLLKtLEE--Pp~~~~fiL  148 (319)
T PRK08769         84 RTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAIN-------------RAACNALLKTLEE--PSPGRYLWL  148 (319)
T ss_pred             cccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhC-------------HHHHHHHHHHhhC--CCCCCeEEE
Confidence            0000  000123455666554432    234699999999997             4677999999995  455777888


Q ss_pred             EcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHH
Q psy450          344 ATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLK  381 (478)
Q Consensus       344 ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~  381 (478)
                      +|+.++.+.|.+++  |+ ..+.++. |+.++-..++.
T Consensus       149 ~~~~~~~lLpTIrS--RC-q~i~~~~-~~~~~~~~~L~  182 (319)
T PRK08769        149 ISAQPARLPATIRS--RC-QRLEFKL-PPAHEALAWLL  182 (319)
T ss_pred             EECChhhCchHHHh--hh-eEeeCCC-cCHHHHHHHHH
Confidence            89999999999999  98 4667765 56766666664

>PRK08181 transposase; Validated

Probab=98.82  E-value=3.2e-08  Score=94.34  Aligned_cols=100  Identities=23%  Similarity=0.317  Sum_probs=65.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhcc-hHHHHHHHHHHhHhCCCeEEEEcCCccccCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIGQ-SEENIRNVFLKARSAAPCVVFFDELDSLAPRR  309 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g~-~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~  309 (478)
                      ..+++|+||||||||+++.++++++   |..+++++..++....... ........+....  .+.+|+|||++..... 
T Consensus       106 ~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l~--~~dLLIIDDlg~~~~~-  182 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKLD--KFDLLILDDLAYVTKD-  182 (269)
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHHh--cCCEEEEeccccccCC-
Confidence            4579999999999999999999765   7788888988887654221 1112333444433  4469999999876532 


Q ss_pred             CCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       310 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                             ......+..++....+   .  .-+|.|||.+
T Consensus       183 -------~~~~~~Lf~lin~R~~---~--~s~IiTSN~~  209 (269)
T PRK08181        183 -------QAETSVLFELISARYE---R--RSILITANQP  209 (269)
T ss_pred             -------HHHHHHHHHHHHHHHh---C--CCEEEEcCCC
Confidence                   1123445555554322   1  1367788875

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=98.78  E-value=6.5e-08  Score=102.48  Aligned_cols=54  Identities=28%  Similarity=0.406  Sum_probs=45.4

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      ....|+..|+++.|+++++..|...+..        ..+++|+||||||||++++++++.+.
T Consensus        22 ~~~~~~~~~~~vigq~~a~~~L~~~~~~--------~~~~l~~G~~G~GKttla~~l~~~l~   75 (637)
T PRK13765         22 DIEVPERLIDQVIGQEHAVEVIKKAAKQ--------RRHVMMIGSPGTGKSMLAKAMAELLP   75 (637)
T ss_pred             ecccCcccHHHcCChHHHHHHHHHHHHh--------CCeEEEECCCCCcHHHHHHHHHHHcC
Confidence            4567888999999999999988876543        23699999999999999999998764

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=98.77  E-value=6.6e-08  Score=95.04  Aligned_cols=163  Identities=20%  Similarity=0.263  Sum_probs=108.1

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEec-------------hh
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG-------------PE  269 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~-------------~~  269 (478)
                      ...+.-++|++..|..|.-....|.      -.++|+.|+.|||||+++|+++.-+.---....|             ..
T Consensus        13 ~~pf~aivGqd~lk~aL~l~av~P~------iggvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~cdP~~P~~~c~~   86 (423)
T COG1239          13 NLPFTAIVGQDPLKLALGLNAVDPQ------IGGALIAGEKGTAKSTLARALADLLPEIEVVIGCPFNCDPDDPEEMCDE   86 (423)
T ss_pred             ccchhhhcCchHHHHHHhhhhcccc------cceeEEecCCCccHHHHHHHHHHhCCccceecCCCCCCCCCChhhhhHH
Confidence            3457788999999887764433322      4579999999999999999999987432221122             11


Q ss_pred             -------------------hhhhhhcchHHHHH------HHHHH---------hHhCCCeEEEEcCCccccCCCCCCCCC
Q psy450          270 -------------------LLNKYIGQSEENIR------NVFLK---------ARSAAPCVVFFDELDSLAPRRGQEDQS  315 (478)
Q Consensus       270 -------------------l~~~~~g~~~~~~~------~~~~~---------a~~~~p~il~iDeid~l~~~~~~~~~~  315 (478)
                                         ++..-.+.++..+-      ...+.         ....+..|+|+||+..|.         
T Consensus        87 c~~k~~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~---------  157 (423)
T COG1239          87 CRAKGDELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLD---------  157 (423)
T ss_pred             HHhhccccccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEecccccc---------
Confidence                               11111233444211      11110         011223599999999887         


Q ss_pred             chhHHHHHHHHHHhhcCC-----------CCCCCeEEEEEcCCC-CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHH
Q psy450          316 SGVMDRVVSQLLAEMDGV-----------HTSQDVFILGATNRV-DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAV  383 (478)
Q Consensus       316 ~~~~~~~~~~ll~~l~~~-----------~~~~~v~vI~ttn~~-~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~  383 (478)
                          +.+++.|+..+..-           ...-++++|+|.|.- ..|-+.|+.  ||...+.+..|.+.++|..|.+..
T Consensus       158 ----d~lvd~LLd~aaeG~n~vereGisi~hpa~fvligTmNPEeGeLrpqLlD--Rfg~~v~~~~~~~~~~rv~Ii~r~  231 (423)
T COG1239         158 ----DHLVDALLDVAAEGVNDVEREGISIRHPARFLLIGTMNPEEGELRPQLLD--RFGLEVDTHYPLDLEERVEIIRRR  231 (423)
T ss_pred             ----HHHHHHHHHHHHhCCceeeeCceeeccCccEEEEeecCccccccchhhHh--hhcceeeccCCCCHHHHHHHHHHH
Confidence                56788888766431           123469999999975 357788888  999999998888999999999776


Q ss_pred             Hhc
Q psy450          384 VRK  386 (478)
Q Consensus       384 ~~~  386 (478)
                      ...
T Consensus       232 ~~f  234 (423)
T COG1239         232 LAF  234 (423)
T ss_pred             HHh
Confidence            543

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.76  E-value=1.5e-07  Score=96.96  Aligned_cols=141  Identities=26%  Similarity=0.291  Sum_probs=85.4

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcE--EEEechhhhh---------
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNF--LAVKGPELLN---------  272 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~--~~v~~~~l~~---------  272 (478)
                      ..+.++.|+..+++.+.-.+.        ...+++|+||||+|||++++.++..+...-  ..+....+.+         
T Consensus       188 ~d~~~v~Gq~~~~~al~laa~--------~G~~llliG~~GsGKTtLak~L~gllpp~~g~e~le~~~i~s~~g~~~~~~  259 (506)
T PRK09862        188 HDLSDVIGQEQGKRGLEITAA--------GGHNLLLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLVNAESVQK  259 (506)
T ss_pred             cCeEEEECcHHHHhhhheecc--------CCcEEEEECCCCCcHHHHHHHHhccCCCCCCcEEEecchhhhhhccccccC
Confidence            367788888777766432211        156799999999999999999987652110  0111111100         


Q ss_pred             -----------------hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-
Q psy450          273 -----------------KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-  334 (478)
Q Consensus       273 -----------------~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-  334 (478)
                                       ..+|.....-...+..|..   .+||+||++.+.             ..++..|+..|+.-. 
T Consensus       260 ~~~~rPfr~ph~~~s~~~l~GGg~~~~pG~l~~A~g---GvLfLDEi~e~~-------------~~~~~~L~~~LE~g~v  323 (506)
T PRK09862        260 QWRQRPFRSPHHSASLTAMVGGGAIPGPGEISLAHN---GVLFLDELPEFE-------------RRTLDALREPIESGQI  323 (506)
T ss_pred             CcCCCCccCCCccchHHHHhCCCceehhhHhhhccC---CEEecCCchhCC-------------HHHHHHHHHHHHcCcE
Confidence                             0111111111123444433   499999998875             345666666553211 


Q ss_pred             ----------CCCCeEEEEEcCCCC---------------------CCCccccCCCCCCeEEEeCCC
Q psy450          335 ----------TSQDVFILGATNRVD---------------------LLDPAILRPGRLDKSLYVGLY  370 (478)
Q Consensus       335 ----------~~~~v~vI~ttn~~~---------------------~ld~~l~~~~Rf~~~i~~~~p  370 (478)
                                ...++.+|+|+|...                     .++.+++.  |||..+.++.|
T Consensus       324 ~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLD--RfdL~v~v~~~  388 (506)
T PRK09862        324 HLSRTRAKITYPARFQLVAAMNPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLD--RFDLSLEIPLP  388 (506)
T ss_pred             EEecCCcceeccCCEEEEEeecCccceecCCCCCCcCHHHHHHHHhhCCHhHHh--hccEEEEeCCC
Confidence                      134689999999752                     36678888  99999999864

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.76  E-value=5.9e-08  Score=94.48  Aligned_cols=101  Identities=21%  Similarity=0.317  Sum_probs=64.6

Q ss_pred             CCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhcch-HHHHHHHHHHhHhCCCeEEEEcCCccccCC
Q psy450          233 KRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIGQS-EENIRNVFLKARSAAPCVVFFDELDSLAPR  308 (478)
Q Consensus       233 ~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g~~-~~~~~~~~~~a~~~~p~il~iDeid~l~~~  308 (478)
                      ...|++|+||+|||||+|+.++|+++   |.++..+..+++........ ...+...++...  ...+|+|||+..-.. 
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~lk~~~~~~~~~~~l~~l~--~~dlLiIDDiG~e~~-  231 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAVK--EAPVLMLDDIGAEQM-  231 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHhcCcHHHHHHHhc--CCCEEEEecCCCccc-
Confidence            36789999999999999999999988   77888888887765532211 112334444443  346999999865431 


Q ss_pred             CCCCCCCchhHH-HHHHHHHHh-hcCCCCCCCeEEEEEcCCC
Q psy450          309 RGQEDQSSGVMD-RVVSQLLAE-MDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       309 ~~~~~~~~~~~~-~~~~~ll~~-l~~~~~~~~v~vI~ttn~~  348 (478)
                             +.+.. .++..++.. +.     .+...|.|||.+
T Consensus       232 -------s~~~~~~ll~~Il~~R~~-----~~~~ti~TSNl~  261 (306)
T PRK08939        232 -------SSWVRDEVLGVILQYRMQ-----EELPTFFTSNFD  261 (306)
T ss_pred             -------cHHHHHHHHHHHHHHHHH-----CCCeEEEECCCC
Confidence                   22222 344444432 22     234578889864

>PRK06526 transposase; Provisional

Probab=98.74  E-value=6.5e-08  Score=91.72  Aligned_cols=100  Identities=16%  Similarity=0.273  Sum_probs=62.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhcc-hHHHHHHHHHHhHhCCCeEEEEcCCccccCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIGQ-SEENIRNVFLKARSAAPCVVFFDELDSLAPRR  309 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g~-~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~  309 (478)
                      +.+++|+||||||||++|.+++.++   |..+..++..++....... ........+...  ..+.+|+|||++.+....
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~l--~~~dlLIIDD~g~~~~~~  175 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAGRLQAELVKL--GRYPLLIVDEVGYIPFEP  175 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHHh--ccCCEEEEcccccCCCCH
Confidence            5679999999999999999998876   6677777777665543211 111222233332  345799999998875321


Q ss_pred             CCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       310 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                              .....+.+++....+   . . .+|.|||.+
T Consensus       176 --------~~~~~L~~li~~r~~---~-~-s~IitSn~~  201 (254)
T PRK06526        176 --------EAANLFFQLVSSRYE---R-A-SLIVTSNKP  201 (254)
T ss_pred             --------HHHHHHHHHHHHHHh---c-C-CEEEEcCCC
Confidence                    123445555544321   1 1 367788876

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.72  E-value=1.1e-07  Score=93.53  Aligned_cols=131  Identities=18%  Similarity=0.216  Sum_probs=88.9

Q ss_pred             CCCCceEEEeCCCCChHHHHHHHHHHHhCC-------------------------cEEEEechhhhhhhhc-----chHH
Q psy450          231 GLKRSGLLLYGPPGTGKTLIAKAVATECRM-------------------------NFLAVKGPELLNKYIG-----QSEE  280 (478)
Q Consensus       231 ~~~~~~iLl~Gp~GtGKT~la~~la~~~~~-------------------------~~~~v~~~~l~~~~~g-----~~~~  280 (478)
                      +..+..+||+||+|+|||++|+.+|+.+.+                         .++++....-. ...|     -.-.
T Consensus        18 ~r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~-~~~g~~~~~I~id   96 (325)
T PRK08699         18 ERRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDE-PENGRKLLQIKID   96 (325)
T ss_pred             CCcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEeccccc-ccccccCCCcCHH
Confidence            344888999999999999999999998732                         13333321100 0001     1345


Q ss_pred             HHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCcccc
Q psy450          281 NIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAIL  356 (478)
Q Consensus       281 ~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~  356 (478)
                      .++++.+.+..    ....|+++|+++.+.             ....+.+++.++...  .++.+|.+|+.++.+.+.++
T Consensus        97 ~iR~l~~~~~~~p~~~~~kV~iiEp~~~Ld-------------~~a~naLLk~LEep~--~~~~~Ilvth~~~~ll~ti~  161 (325)
T PRK08699         97 AVREIIDNVYLTSVRGGLRVILIHPAESMN-------------LQAANSLLKVLEEPP--PQVVFLLVSHAADKVLPTIK  161 (325)
T ss_pred             HHHHHHHHHhhCcccCCceEEEEechhhCC-------------HHHHHHHHHHHHhCc--CCCEEEEEeCChHhChHHHH
Confidence            56776666543    334699999999997             356678888888653  34667778898999999999


Q ss_pred             CCCCCCeEEEeCCCCCHHHHHHHHH
Q psy450          357 RPGRLDKSLYVGLYEDRISQLGVLK  381 (478)
Q Consensus       357 ~~~Rf~~~i~~~~pp~~~~r~~il~  381 (478)
                      +  |+ ..+.++. |+.++....+.
T Consensus       162 S--Rc-~~~~~~~-~~~~~~~~~L~  182 (325)
T PRK08699        162 S--RC-RKMVLPA-PSHEEALAYLR  182 (325)
T ss_pred             H--Hh-hhhcCCC-CCHHHHHHHHH
Confidence            8  88 4566664 67777666664

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

Probab=98.71  E-value=2.1e-07  Score=88.36  Aligned_cols=71  Identities=27%  Similarity=0.501  Sum_probs=50.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhcchHH-HHH-HHHHHhHhCCCeEEEEcCCcccc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIGQSEE-NIR-NVFLKARSAAPCVVFFDELDSLA  306 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g~~~~-~~~-~~~~~a~~~~p~il~iDeid~l~  306 (478)
                      +.+++|+||||+|||+||-|+++++   |.+++.++.++++......-.. ... .+.....  ...+|+|||+....
T Consensus       105 ~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~l~--~~dlLIiDDlG~~~  180 (254)
T COG1484         105 GENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRELK--KVDLLIIDDIGYEP  180 (254)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHHhh--cCCEEEEecccCcc
Confidence            6789999999999999999999987   7889999999887664322111 111 1222122  33599999987654

>PRK06921 hypothetical protein; Provisional

Probab=98.71  E-value=2.7e-07  Score=88.20  Aligned_cols=68  Identities=24%  Similarity=0.291  Sum_probs=47.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCcc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDS  304 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~  304 (478)
                      ..+++|+||||+|||+|+.++++++    +..+++++..++....... .......+...  ....+|+|||++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~-~~~~~~~~~~~--~~~dlLiIDDl~~  188 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDD-FDLLEAKLNRM--KKVEVLFIDDLFK  188 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHH-HHHHHHHHHHh--cCCCEEEEecccc
Confidence            5679999999999999999999976    5677888877665443211 11122233333  2346999999954

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.70  E-value=3.2e-08  Score=85.17  Aligned_cols=106  Identities=21%  Similarity=0.388  Sum_probs=67.0

Q ss_pred             CcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC---cEEEEechhhhhhhhcchHHHHHHHHH
Q psy450          211 GLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM---NFLAVKGPELLNKYIGQSEENIRNVFL  287 (478)
Q Consensus       211 g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~---~~~~v~~~~l~~~~~g~~~~~~~~~~~  287 (478)
                      |.+...+++.+.+......    ...++|+|++||||+++|+++....+.   +++.+++..+.           .+.++
T Consensus         2 G~S~~~~~l~~~l~~~a~~----~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~-----------~~~l~   66 (138)
T PF14532_consen    2 GKSPAMRRLRRQLERLAKS----SSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP-----------AELLE   66 (138)
T ss_dssp             -SCHHHHHHHHHHHHHHCS----SS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC-----------HHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCC----CCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc-----------HHHHH
Confidence            5556666676666665432    456999999999999999999887653   55555655432           33555


Q ss_pred             HhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          288 KARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       288 ~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                      .+   ....|||+|+|.|..             .....|+..++... ..++.+|++++.+
T Consensus        67 ~a---~~gtL~l~~i~~L~~-------------~~Q~~L~~~l~~~~-~~~~RlI~ss~~~  110 (138)
T PF14532_consen   67 QA---KGGTLYLKNIDRLSP-------------EAQRRLLDLLKRQE-RSNVRLIASSSQD  110 (138)
T ss_dssp             HC---TTSEEEEECGCCS-H-------------HHHHHHHHHHHHCT-TTTSEEEEEECC-
T ss_pred             Hc---CCCEEEECChHHCCH-------------HHHHHHHHHHHhcC-CCCeEEEEEeCCC
Confidence            55   445999999999973             34455555554322 3455666666653

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.67  E-value=1.4e-07  Score=92.70  Aligned_cols=71  Identities=23%  Similarity=0.374  Sum_probs=50.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhcc---hHHHHHHHHHHhHhCCCeEEEEcCCcccc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIGQ---SEENIRNVFLKARSAAPCVVFFDELDSLA  306 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g~---~~~~~~~~~~~a~~~~p~il~iDeid~l~  306 (478)
                      ..+++|+||+|||||+|+.++|+++   |..+++++..++.......   ........+....  ...+|+|||+....
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l~--~~DLLIIDDlG~e~  259 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLLI--NCDLLIIDDLGTEK  259 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHhc--cCCEEEEeccCCCC
Confidence            4679999999999999999999987   7789999988876654221   1111112233333  33699999997764

>PRK09183 transposase/IS protein; Provisional

Probab=98.66  E-value=1.1e-07  Score=90.70  Aligned_cols=72  Identities=24%  Similarity=0.410  Sum_probs=50.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhcc-hHHHHHHHHHHhHhCCCeEEEEcCCcccc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIGQ-SEENIRNVFLKARSAAPCVVFFDELDSLA  306 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g~-~~~~~~~~~~~a~~~~p~il~iDeid~l~  306 (478)
                      ..+++|+||||||||+++.+++..+   |..+.+++..++...+... ....+...+... ...+.+++|||++...
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~-~~~~dlLiiDdlg~~~  177 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRG-VMAPRLLIIDEIGYLP  177 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHH-hcCCCEEEEcccccCC
Confidence            5579999999999999999997664   6778888877776443211 111233444443 2456799999998764

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.66  E-value=1.6e-07  Score=97.20  Aligned_cols=188  Identities=20%  Similarity=0.238  Sum_probs=102.6

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh-----hcch
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY-----IGQS  278 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~-----~g~~  278 (478)
                      ..++|.....+.+...+.....    ...+++++|++||||+++|+++....   +.+|+.++|..+....     .|..
T Consensus       139 ~~lig~s~~~~~l~~~i~~~a~----~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~~~~~~~lfg~~  214 (445)
T TIGR02915       139 RGLITSSPGMQKICRTIEKIAP----SDITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPENLLESELFGYE  214 (445)
T ss_pred             cceeecCHHHHHHHHHHHHHhC----CCCCEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCChHHHHHHhcCCC
Confidence            4566666666666655544321    14569999999999999999998765   4689999997663221     1100


Q ss_pred             H-------HHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----C----CCCeEEE
Q psy450          279 E-------ENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----T----SQDVFIL  342 (478)
Q Consensus       279 ~-------~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----~----~~~v~vI  342 (478)
                      .       ......+..   ...++|||||++.|..             .....|+..++.-.     .    ..++.+|
T Consensus       215 ~~~~~~~~~~~~g~~~~---a~~gtl~l~~i~~l~~-------------~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii  278 (445)
T TIGR02915       215 KGAFTGAVKQTLGKIEY---AHGGTLFLDEIGDLPL-------------NLQAKLLRFLQERVIERLGGREEIPVDVRIV  278 (445)
T ss_pred             CCCcCCCccCCCCceeE---CCCCEEEEechhhCCH-------------HHHHHHHHHHhhCeEEeCCCCceeeeceEEE
Confidence            0       000011211   2346999999999973             34455555554211     0    1257888


Q ss_pred             EEcCCC-------CCCCccccCCCCCCeEEEeCCCCCHHHHHHH---HHHHHhcC----CCC-CCCC---HHHHHHhcCC
Q psy450          343 GATNRV-------DLLDPAILRPGRLDKSLYVGLYEDRISQLGV---LKAVVRKF----KLS-DDVS---LDSLVHHFPS  404 (478)
Q Consensus       343 ~ttn~~-------~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~i---l~~~~~~~----~~~-~~~~---~~~la~~~~~  404 (478)
                      ++|+..       ..+.+.|..  |+. .+.+.+||-++.+.+|   .+.+++..    +.. ...+   +..|..+   
T Consensus       279 ~~~~~~l~~~~~~~~~~~~L~~--~l~-~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~---  352 (445)
T TIGR02915       279 CATNQDLKRMIAEGTFREDLFY--RIA-EISITIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALRALEAH---  352 (445)
T ss_pred             EecCCCHHHHHHcCCccHHHHH--Hhc-cceecCCCchhchhhHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHhC---
Confidence            888764       223333333  432 2445556666555443   34444322    111 1122   3333322   


Q ss_pred             CC--CHHHHHHHHHHHHH
Q psy450          405 QM--SGADIYSICSNAWT  420 (478)
Q Consensus       405 ~~--sg~di~~l~~~a~~  420 (478)
                      .+  +-+++++++..|+.
T Consensus       353 ~wpgNvreL~~~i~~a~~  370 (445)
T TIGR02915       353 AWPGNVRELENKVKRAVI  370 (445)
T ss_pred             CCCChHHHHHHHHHHHHH
Confidence            23  34677777777764

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>KOG1942|consensus

Probab=98.65  E-value=2.1e-06  Score=80.03  Aligned_cols=58  Identities=24%  Similarity=0.283  Sum_probs=42.1

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .+...-..++|++.+++..--.+.... ......+.+||.||||||||.+|-++++++|
T Consensus        32 ~~~~~~~g~vGQ~~AReAagiivdlik-~KkmaGravLlaGppgtGKTAlAlaisqELG   89 (456)
T KOG1942|consen   32 NAVEVAAGFVGQENAREAAGIIVDLIK-SKKMAGRAVLLAGPPGTGKTALALAISQELG   89 (456)
T ss_pred             CeeecccccccchhhhhhhhHHHHHHH-hhhccCcEEEEecCCCCchhHHHHHHHHHhC
Confidence            344555678999988876543333332 2223378899999999999999999999874

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=98.63  E-value=1.6e-07  Score=101.41  Aligned_cols=159  Identities=18%  Similarity=0.175  Sum_probs=92.3

Q ss_pred             cccCcHHHHHHHHHHHHhhhhh--------------CCCC-CceEEEeCCCCChHHHHHHHHHHHhCC-------cEEEE
Q psy450          208 DIGGLSKLKAEILSTFRGVNRT--------------SGLK-RSGLLLYGPPGTGKTLIAKAVATECRM-------NFLAV  265 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~--------------~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~-------~~~~v  265 (478)
                      .|.|.+.+|+.+.-.+-.-...              ...+ ..+|||+|+||||||.+|+++++....       ++..+
T Consensus       451 ~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~v  530 (915)
T PTZ00111        451 SIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSV  530 (915)
T ss_pred             eEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccc
Confidence            5789999998775433221100              0111 448999999999999999999986532       33333


Q ss_pred             echhhhhhhhcchHHHH--HHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------
Q psy450          266 KGPELLNKYIGQSEENI--RNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------  334 (478)
Q Consensus       266 ~~~~l~~~~~g~~~~~~--~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------  334 (478)
                      .+..........+....  ...+   .....++++|||++.+..             .....|+..|+.-.         
T Consensus       531 gLTa~~~~~d~~tG~~~le~GaL---vlAdgGtL~IDEidkms~-------------~~Q~aLlEaMEqqtIsI~KaGi~  594 (915)
T PTZ00111        531 GLTASIKFNESDNGRAMIQPGAV---VLANGGVCCIDELDKCHN-------------ESRLSLYEVMEQQTVTIAKAGIV  594 (915)
T ss_pred             cccchhhhcccccCcccccCCcE---EEcCCCeEEecchhhCCH-------------HHHHHHHHHHhCCEEEEecCCcc
Confidence            33222110000000000  0011   112235999999999863             34455555554211         


Q ss_pred             --CCCCeEEEEEcCCCC-------------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          335 --TSQDVFILGATNRVD-------------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       335 --~~~~v~vI~ttn~~~-------------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                        -+.++.|||++|..+             .+++++++  |||....+..+|+.+.-..|-.+.+
T Consensus       595 ~tL~ar~rVIAAaNP~~gryd~~~s~~eni~Lp~~LLS--RFDLIf~l~D~~d~~~D~~lA~hI~  657 (915)
T PTZ00111        595 ATLKAETAILASCNPINSRYNKNKAVIENINISPSLFT--RFDLIYLVLDHIDQDTDQLISLSIA  657 (915)
T ss_pred             eecCCCeEEEEEcCCcccccCcccCcccccCCChHHhh--hhcEEEEecCCCChHHHHHHHHHHH
Confidence              134689999999741             37899999  9998876665667665555555444

>PF13173 AAA_14: AAA domain

Probab=98.63  E-value=2.8e-07  Score=78.12  Aligned_cols=70  Identities=24%  Similarity=0.402  Sum_probs=48.4

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC--CcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCcccc
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR--MNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLA  306 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~--~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~  306 (478)
                      +.++|+||+|||||++++.+++.+.  .+++++++.+..........  +.+.+.......+.+|||||++.+.
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~i~iDEiq~~~   74 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPD--LLEYFLELIKPGKKYIFIDEIQYLP   74 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhh--hHHHHHHhhccCCcEEEEehhhhhc
Confidence            4589999999999999999998886  78888888765432211111  2233332222256799999999884

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=98.60  E-value=7.7e-07  Score=92.83  Aligned_cols=156  Identities=22%  Similarity=0.332  Sum_probs=91.5

Q ss_pred             cccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-----hhcc
Q psy450          206 WEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-----YIGQ  277 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-----~~g~  277 (478)
                      +.+++|.....+.+.+.+......    ...++++|++|||||++|+++....   +.+|+.++|+.+...     ..|.
T Consensus       137 ~~~lig~s~~~~~l~~~~~~~~~~----~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~~~~~~lfg~  212 (469)
T PRK10923        137 TTDIIGEAPAMQDVFRIIGRLSRS----SISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLIESELFGH  212 (469)
T ss_pred             cccceecCHHHHHHHHHHHHHhcc----CCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHHHHHHHhcCC
Confidence            456778777777766665543322    4569999999999999999998876   468999999776321     1111


Q ss_pred             hHHH-------HHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----C----CCCeEE
Q psy450          278 SEEN-------IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----T----SQDVFI  341 (478)
Q Consensus       278 ~~~~-------~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----~----~~~v~v  341 (478)
                      ....       ....|..   ...+.|||||++.|..             .....|+..++...     .    ..++.+
T Consensus       213 ~~g~~~~~~~~~~g~~~~---a~~Gtl~l~~i~~l~~-------------~~q~~L~~~l~~~~~~~~~~~~~~~~~~ri  276 (469)
T PRK10923        213 EKGAFTGANTIRQGRFEQ---ADGGTLFLDEIGDMPL-------------DVQTRLLRVLADGQFYRVGGYAPVKVDVRI  276 (469)
T ss_pred             CCCCCCCCCcCCCCCeeE---CCCCEEEEeccccCCH-------------HHHHHHHHHHhcCcEEeCCCCCeEEeeEEE
Confidence            1000       0011222   2245899999999973             34455555554321     0    124688


Q ss_pred             EEEcCCC-------CCCCccccCCCCCCeEEEeCCCCCHHHHHH---HHHHHH
Q psy450          342 LGATNRV-------DLLDPAILRPGRLDKSLYVGLYEDRISQLG---VLKAVV  384 (478)
Q Consensus       342 I~ttn~~-------~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~---il~~~~  384 (478)
                      |+||+..       ..+.+.+..  ||. .+.+.+||-++.+.+   ++..++
T Consensus       277 i~~~~~~l~~~~~~~~~~~~L~~--~l~-~~~i~~PpLreR~~Di~~l~~~~l  326 (469)
T PRK10923        277 IAATHQNLEQRVQEGKFREDLFH--RLN-VIRVHLPPLRERREDIPRLARHFL  326 (469)
T ss_pred             EEeCCCCHHHHHHcCCchHHHHH--Hhc-ceeecCCCcccchhhHHHHHHHHH
Confidence            8888764       134445554  553 244445565544433   334444

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

Probab=98.58  E-value=7.2e-08  Score=86.50  Aligned_cols=100  Identities=23%  Similarity=0.366  Sum_probs=59.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhcch-HHHHHHHHHHhHhCCCeEEEEcCCccccCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIGQS-EENIRNVFLKARSAAPCVVFFDELDSLAPRR  309 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g~~-~~~~~~~~~~a~~~~p~il~iDeid~l~~~~  309 (478)
                      ..+++|+||||||||++|.++++++   |.++.+++.+++........ .......+......  .+|+|||+.....  
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~~~--dlLilDDlG~~~~--  122 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLKRV--DLLILDDLGYEPL--  122 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHHTS--SCEEEETCTSS----
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCccccc--cEecccccceeee--
Confidence            5689999999999999999999876   88899999988876643221 11223344444433  5999999864321  


Q ss_pred             CCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       310 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                            +.+....+..++..-.+   . + -.|.|||..
T Consensus       123 ------~~~~~~~l~~ii~~R~~---~-~-~tIiTSN~~  150 (178)
T PF01695_consen  123 ------SEWEAELLFEIIDERYE---R-K-PTIITSNLS  150 (178)
T ss_dssp             -------HHHHHCTHHHHHHHHH---T---EEEEEESS-
T ss_pred             ------cccccccchhhhhHhhc---c-c-CeEeeCCCc
Confidence                  22223444444444321   1 2 356688864

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.

>KOG0990|consensus

Probab=98.58  E-value=1.9e-07  Score=88.13  Aligned_cols=160  Identities=19%  Similarity=0.151  Sum_probs=99.8

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcE------EEEechhhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNF------LAVKGPELL  271 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~------~~v~~~~l~  271 (478)
                      .+.++...++++++.+++...+.+.....    +  -.+.|+|||||+|||+...+.|..+-.+.      ..++.++-.
T Consensus        32 vekyrP~~l~dv~~~~ei~st~~~~~~~~----~--lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaSd~r  105 (360)
T KOG0990|consen   32 VEKYRPPFLGIVIKQEPIWSTENRYSGMP----G--LPHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNASDDR  105 (360)
T ss_pred             ccCCCCchhhhHhcCCchhhHHHHhccCC----C--CCcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhccCcc
Confidence            45566777889999998888887762211    1  23899999999999999999999885531      111111100


Q ss_pred             hhhhcchHHHHHHHHHHhH-------hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEE
Q psy450          272 NKYIGQSEENIRNVFLKAR-------SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGA  344 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~-------~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~t  344 (478)
                        .. .....-...|..++       ...+..+++||+|.+.             +...++|-...+.+..  ++.+...
T Consensus       106 --gi-d~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT-------------~~AQnALRRviek~t~--n~rF~ii  167 (360)
T KOG0990|consen  106 --GI-DPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMT-------------RDAQNALRRVIEKYTA--NTRFATI  167 (360)
T ss_pred             --CC-cchHHHHHHHHhhccceeccccCceeEEEecchhHhh-------------HHHHHHHHHHHHHhcc--ceEEEEe
Confidence              00 11222223444443       2366799999999997             3445555555554433  4455567


Q ss_pred             cCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHh
Q psy450          345 TNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVR  385 (478)
Q Consensus       345 tn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~  385 (478)
                      +|.|..+.|++++  ||.+.-+-++  +...-...+..+.+
T Consensus       168 ~n~~~ki~pa~qs--Rctrfrf~pl--~~~~~~~r~shi~e  204 (360)
T KOG0990|consen  168 SNPPQKIHPAQQS--RCTRFRFAPL--TMAQQTERQSHIRE  204 (360)
T ss_pred             ccChhhcCchhhc--ccccCCCCCC--ChhhhhhHHHHHHh
Confidence            8999999999998  8865554444  34444444555443

>KOG2035|consensus

Probab=98.58  E-value=9.9e-07  Score=81.66  Aligned_cols=172  Identities=19%  Similarity=0.191  Sum_probs=111.9

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-CC--c----------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-RM--N----------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-~~--~----------------  261 (478)
                      +.+.+++.+.+.++....|......     + .-.|+++|||+|+||-|.+.++-+++ |.  .                
T Consensus         7 yrpksl~~l~~~~e~~~~Lksl~~~-----~-d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kk   80 (351)
T KOG2035|consen    7 YRPKSLDELIYHEELANLLKSLSST-----G-DFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKK   80 (351)
T ss_pred             cCcchhhhcccHHHHHHHHHHhccc-----C-CCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCce
Confidence            3445677788888877777765431     1 13479999999999999999998876 21  1                


Q ss_pred             --E--------EEEechhhhhhhhcc-hHHHHHHHHHHhHhC---------CCeEEEEcCCccccCCCCCCCCCchhHHH
Q psy450          262 --F--------LAVKGPELLNKYIGQ-SEENIRNVFLKARSA---------APCVVFFDELDSLAPRRGQEDQSSGVMDR  321 (478)
Q Consensus       262 --~--------~~v~~~~l~~~~~g~-~~~~~~~~~~~a~~~---------~p~il~iDeid~l~~~~~~~~~~~~~~~~  321 (478)
                        +        +++++++     .|. ..-.+.+++......         ...+++|.|+|.|.             +.
T Consensus        81 lEistvsS~yHlEitPSD-----aG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~LT-------------~d  142 (351)
T KOG2035|consen   81 LEISTVSSNYHLEITPSD-----AGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADELT-------------RD  142 (351)
T ss_pred             EEEEEecccceEEeChhh-----cCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhhh-------------HH
Confidence              1        1112221     233 233345555444322         23599999999997             34


Q ss_pred             HHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHH
Q psy450          322 VVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVH  400 (478)
Q Consensus       322 ~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~  400 (478)
                      ....|-..|+...  .++.+|..+|..+.+=+++++  |+ ..+.++- |+.++...++...+++.++.... -+..+++
T Consensus       143 AQ~aLRRTMEkYs--~~~RlIl~cns~SriIepIrS--RC-l~iRvpa-ps~eeI~~vl~~v~~kE~l~lp~~~l~rIa~  216 (351)
T KOG2035|consen  143 AQHALRRTMEKYS--SNCRLILVCNSTSRIIEPIRS--RC-LFIRVPA-PSDEEITSVLSKVLKKEGLQLPKELLKRIAE  216 (351)
T ss_pred             HHHHHHHHHHHHh--cCceEEEEecCcccchhHHhh--he-eEEeCCC-CCHHHHHHHHHHHHHHhcccCcHHHHHHHHH
Confidence            5566666666543  345677778888888899998  76 5667776 68999999999888876654332 2445555


Q ss_pred             hc
Q psy450          401 HF  402 (478)
Q Consensus       401 ~~  402 (478)
                      .+
T Consensus       217 kS  218 (351)
T KOG2035|consen  217 KS  218 (351)
T ss_pred             Hh
Confidence            43

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

Probab=98.57  E-value=3.4e-07  Score=77.71  Aligned_cols=86  Identities=22%  Similarity=0.318  Sum_probs=54.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh--------CCcEEEEechhhhhh----------h----hc-chHHH-HHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC--------RMNFLAVKGPELLNK----------Y----IG-QSEEN-IRNVFLKA  289 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~--------~~~~~~v~~~~l~~~----------~----~g-~~~~~-~~~~~~~a  289 (478)
                      .+.++++||||+|||++++.+++.+        +.+++.++++...+.          .    .. .+... ...+.+..
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            4568999999999999999999987        678888887544311          0    01 12232 33344444


Q ss_pred             HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhc
Q psy450          290 RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMD  331 (478)
Q Consensus       290 ~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~  331 (478)
                      ......+|+|||+|.+. +           ...++.+...++
T Consensus        84 ~~~~~~~lviDe~~~l~-~-----------~~~l~~l~~l~~  113 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHLF-S-----------DEFLEFLRSLLN  113 (131)
T ss_dssp             HHCTEEEEEEETTHHHH-T-----------HHHHHHHHHHTC
T ss_pred             HhcCCeEEEEeChHhcC-C-----------HHHHHHHHHHHh
Confidence            44444599999999984 1           456666655555

>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=98.56  E-value=2.5e-07  Score=86.59  Aligned_cols=178  Identities=18%  Similarity=0.274  Sum_probs=91.3

Q ss_pred             cCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc---EEEEec-hh----hhhhh-------
Q psy450          210 GGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN---FLAVKG-PE----LLNKY-------  274 (478)
Q Consensus       210 ~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~---~~~v~~-~~----l~~~~-------  274 (478)
                      +|-++..+.|.+.+...      +...++++||+|+|||++++.+.+.+...   .+++.. ..    .....       
T Consensus         2 ~gR~~el~~l~~~l~~~------~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~   75 (234)
T PF01637_consen    2 FGREKELEKLKELLESG------PSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRSFIEETSLA   75 (234)
T ss_dssp             -S-HHHHHHHHHCHHH--------SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhh------cCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHHHHHHHHHH
Confidence            45666666666655432      14569999999999999999999988321   112211 00    00000       


Q ss_pred             ------h-----------------cchHHHHHHHHHHhHhCC-CeEEEEcCCcccc-CCCCCCCCCchhHHHHHHHHHHh
Q psy450          275 ------I-----------------GQSEENIRNVFLKARSAA-PCVVFFDELDSLA-PRRGQEDQSSGVMDRVVSQLLAE  329 (478)
Q Consensus       275 ------~-----------------g~~~~~~~~~~~~a~~~~-p~il~iDeid~l~-~~~~~~~~~~~~~~~~~~~ll~~  329 (478)
                            .                 ......+..++....... ..||+|||++.+. ....        .......+...
T Consensus        76 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~--------~~~~~~~l~~~  147 (234)
T PF01637_consen   76 DELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEE--------DKDFLKSLRSL  147 (234)
T ss_dssp             CHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTT--------THHHHHHHHHH
T ss_pred             HHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccc--------hHHHHHHHHHH
Confidence                  0                 112344556666654432 3899999999998 2210        13455566666


Q ss_pred             hcCCCCCCCeEEEEEcCCCCC------CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC---CCCCHHHHHH
Q psy450          330 MDGVHTSQDVFILGATNRVDL------LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS---DDVSLDSLVH  400 (478)
Q Consensus       330 l~~~~~~~~v~vI~ttn~~~~------ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~---~~~~~~~la~  400 (478)
                      ++......++.+|.++.....      -...+.  +|+.. +.++. -+.++-.++++..++.. ..   ++.++..+..
T Consensus       148 ~~~~~~~~~~~~v~~~S~~~~~~~~~~~~~~~~--~~~~~-~~l~~-l~~~e~~~~~~~~~~~~-~~~~~~~~~~~~i~~  222 (234)
T PF01637_consen  148 LDSLLSQQNVSIVITGSSDSLMEEFLDDKSPLF--GRFSH-IELKP-LSKEEAREFLKELFKEL-IKLPFSDEDIEEIYS  222 (234)
T ss_dssp             HHH----TTEEEEEEESSHHHHHHTT-TTSTTT--T---E-EEE-----HHHHHHHHHHHHHCC-------HHHHHHHHH
T ss_pred             HhhccccCCceEEEECCchHHHHHhhcccCccc--cccce-EEEee-CCHHHHHHHHHHHHHHh-hcccCCHHHHHHHHH
Confidence            655444555555555443211      122333  37776 88874 78888888998877665 21   3344666666


Q ss_pred             hcCCCCC
Q psy450          401 HFPSQMS  407 (478)
Q Consensus       401 ~~~~~~s  407 (478)
                      .+ +|+.
T Consensus       223 ~~-gG~P  228 (234)
T PF01637_consen  223 LT-GGNP  228 (234)
T ss_dssp             HH-TT-H
T ss_pred             Hh-CCCH
Confidence            55 4543

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

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.56  E-value=3e-07  Score=91.77  Aligned_cols=77  Identities=22%  Similarity=0.348  Sum_probs=52.1

Q ss_pred             CCCCHHHHHHHHHHhhhhc--ccCCCCC-CCC---CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChH
Q psy450          174 RDLQKEDFQQIYDDLQSRY--SDQLDAP-SVP---NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGK  247 (478)
Q Consensus       174 ~~it~~d~~~a~~~~~~~~--~~~~~~~-~~~---~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGK  247 (478)
                      ......++....+.+....  ....... ...   ...|.|+.|++..|..+.-...      |  .+|+|++|||||||
T Consensus       140 ~v~~~~~l~ev~~~l~g~~~l~~~~~~~~~~~~~~~~D~~DV~GQ~~AKrAleiAAA------G--gHnLl~~GpPGtGK  211 (490)
T COG0606         140 PVYGARYLEEVVNFLEGKLRLPIPIPSEVIESFSLAPDFKDVKGQEQAKRALEIAAA------G--GHNLLLVGPPGTGK  211 (490)
T ss_pred             CccchhhHHHHHHHhcCCcCCCCCCccccccccccCcchhhhcCcHHHHHHHHHHHh------c--CCcEEEecCCCCch
Confidence            3344556777777776531  1111010 111   3478899999999998875432      2  67899999999999


Q ss_pred             HHHHHHHHHHh
Q psy450          248 TLIAKAVATEC  258 (478)
Q Consensus       248 T~la~~la~~~  258 (478)
                      |++|+.+...+
T Consensus       212 Tmla~Rl~~lL  222 (490)
T COG0606         212 TMLASRLPGLL  222 (490)
T ss_pred             HHhhhhhcccC
Confidence            99999887655

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=98.56  E-value=1.3e-06  Score=90.91  Aligned_cols=151  Identities=22%  Similarity=0.288  Sum_probs=85.8

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh-----hcch
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY-----IGQS  278 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~-----~g~~  278 (478)
                      ..+.|.+.....+.+.+......    ...++++|++||||+++|+++....   +.+|+.++|..+....     .|..
T Consensus       143 ~~ii~~S~~~~~~~~~~~~~a~~----~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~~~~~~~lfg~~  218 (457)
T PRK11361        143 GHILTNSPAMMDICKDTAKIALS----QASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESLLESELFGHE  218 (457)
T ss_pred             cceecccHHHhHHHHHHHHHcCC----CcEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCHHHHHHHhcCCC
Confidence            34566655555554444333221    4569999999999999999997764   5689999997663221     1110


Q ss_pred             HHH-------HHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----C----CCCeEEE
Q psy450          279 EEN-------IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----T----SQDVFIL  342 (478)
Q Consensus       279 ~~~-------~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----~----~~~v~vI  342 (478)
                      ...       ....+..   ....+|||||++.+..             .....|+..++.-.     .    ..++.+|
T Consensus       219 ~~~~~~~~~~~~g~~~~---a~~gtl~ld~i~~l~~-------------~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii  282 (457)
T PRK11361        219 KGAFTGAQTLRQGLFER---ANEGTLLLDEIGEMPL-------------VLQAKLLRILQEREFERIGGHQTIKVDIRII  282 (457)
T ss_pred             CCCCCCCCCCCCCceEE---CCCCEEEEechhhCCH-------------HHHHHHHHHHhcCcEEeCCCCceeeeceEEE
Confidence            000       0011222   2235999999999973             34455555554311     1    1247889


Q ss_pred             EEcCCCCCCCccccCCCCCCe-------EEEeCCCCCHHHHHHHH
Q psy450          343 GATNRVDLLDPAILRPGRLDK-------SLYVGLYEDRISQLGVL  380 (478)
Q Consensus       343 ~ttn~~~~ld~~l~~~~Rf~~-------~i~~~~pp~~~~r~~il  380 (478)
                      +||+..-.   .+...|+|..       .+.+.+||-++.+.+|.
T Consensus       283 ~~t~~~l~---~~~~~g~~~~~l~~~l~~~~i~~ppLreR~~di~  324 (457)
T PRK11361        283 AATNRDLQ---AMVKEGTFREDLFYRLNVIHLILPPLRDRREDIS  324 (457)
T ss_pred             EeCCCCHH---HHHHcCCchHHHHHHhccceecCCChhhchhhHH
Confidence            99986421   2222233333       34555666665555443

>KOG2680|consensus

Probab=98.54  E-value=4.5e-06  Score=78.16  Aligned_cols=69  Identities=26%  Similarity=0.397  Sum_probs=45.7

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC--cEEEEechhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM--NFLAVKGPEL  270 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~--~~~~v~~~~l  270 (478)
                      .|...-+.++|+-++.+..--.+... +......+.+|+.|+||+|||.+|-.+++.+|.  ||..+.++++
T Consensus        34 e~~~~s~GmVGQ~~AR~Aagvi~kmi-~egkiaGraiLiaG~pgtGKtAiAmg~sksLG~~tpF~~i~gSEI  104 (454)
T KOG2680|consen   34 EPRYVSEGMVGQVKARKAAGVILKMI-REGKIAGRAILIAGQPGTGKTAIAMGMSKSLGDDTPFTSISGSEI  104 (454)
T ss_pred             CcccccccchhhHHHHHHhHHHHHHH-HcCcccceEEEEecCCCCCceeeeeehhhhhCCCCceeeeeccee
Confidence            35556677888877665543322222 222223778999999999999999999998853  5555544433

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.53  E-value=3e-06  Score=88.11  Aligned_cols=207  Identities=18%  Similarity=0.208  Sum_probs=111.7

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh-h-----
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL-L-----  271 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l-~-----  271 (478)
                      ...+.+.+.+++....+-.+.++..+...... ..+.+-+||+||||||||++++.+|++++..+.+-..+.. .     
T Consensus        10 ~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~~-~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew~np~~~~~~~~~   88 (519)
T PF03215_consen   10 VEKYAPKTLDELAVHKKKVEEVRSWLEEMFSG-SSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEWINPVSFRESDNQ   88 (519)
T ss_pred             chhcCCCCHHHhhccHHHHHHHHHHHHHHhcc-CCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEecCCCCccccccc
Confidence            44566778888888877777777766654321 1124467889999999999999999999988776432211 0     


Q ss_pred             -hhhhcch---------HHHHHHH-HHHhHh-----------CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHh
Q psy450          272 -NKYIGQS---------EENIRNV-FLKARS-----------AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAE  329 (478)
Q Consensus       272 -~~~~g~~---------~~~~~~~-~~~a~~-----------~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~  329 (478)
                       ..+.+..         ......+ +..++.           ..+.||+|+|+=.++...      .   .+....|...
T Consensus        89 ~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~~~------~---~~f~~~L~~~  159 (519)
T PF03215_consen   89 EDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFHRD------T---SRFREALRQY  159 (519)
T ss_pred             cccccccccccccccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccchh------H---HHHHHHHHHH
Confidence             0111110         0111111 111111           246799999987655321      1   2333334334


Q ss_pred             hcCCCCCC-CeEEEEEc-------CCC--------CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcC------
Q psy450          330 MDGVHTSQ-DVFILGAT-------NRV--------DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKF------  387 (478)
Q Consensus       330 l~~~~~~~-~v~vI~tt-------n~~--------~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~------  387 (478)
                      +..  ... ++++|.|-       |..        ..+++.++...+. ..|.|.+ -...-..+-|+..+...      
T Consensus       160 l~~--~~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i-~~I~FNp-Ia~T~mkKaL~rI~~~E~~~~~~  235 (519)
T PF03215_consen  160 LRS--SRCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGI-TRIKFNP-IAPTFMKKALKRILKKEARSSSG  235 (519)
T ss_pred             HHc--CCCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCc-eEEEecC-CCHHHHHHHHHHHHHHHhhhhcC
Confidence            432  222 66666661       111        1356667664344 4555543 34444444444444322      


Q ss_pred             --CCCCCCC-HHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Q psy450          388 --KLSDDVS-LDSLVHHFPSQMSGADIYSICSNAWTRAI  423 (478)
Q Consensus       388 --~~~~~~~-~~~la~~~~~~~sg~di~~l~~~a~~~a~  423 (478)
                        ....... ++.|+..+     ++||+.++..-...+.
T Consensus       236 ~~~~p~~~~~l~~I~~~s-----~GDIRsAIn~LQf~~~  269 (519)
T PF03215_consen  236 KNKVPDKQSVLDSIAESS-----NGDIRSAINNLQFWCL  269 (519)
T ss_pred             CccCCChHHHHHHHHHhc-----CchHHHHHHHHHHHhc
Confidence              1222122 55666543     4599998887776666

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

Probab=98.47  E-value=2.4e-07  Score=78.61  Aligned_cols=76  Identities=17%  Similarity=0.200  Sum_probs=60.7

Q ss_pred             ccCccchhhhhHHHHhhhhcC-CCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCCcEEE
Q psy450           24 FATPRYHHLNDIVKINLKKYN-LDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKL   92 (478)
Q Consensus        24 ~~~~~~~~~~~if~~~a~~~~-p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~v   92 (478)
                      +.......++++|+ .+++.+ ||||||||+|.+++..          .++.++..+|...           ....+++|
T Consensus        38 ~~~~~~~~i~~~~~-~~~~~~~~~vl~iDe~d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~-----------~~~~~~~v  105 (132)
T PF00004_consen   38 YAGDSEQKIRDFFK-KAKKSAKPCVLFIDEIDKLFPKSQPSSSSFEQRLLNQLLSLLDNPS-----------SKNSRVIV  105 (132)
T ss_dssp             STTHHHHHHHHHHH-HHHHTSTSEEEEEETGGGTSHHCSTSSSHHHHHHHHHHHHHHHTTT-----------TTSSSEEE
T ss_pred             cccccccccccccc-cccccccceeeeeccchhcccccccccccccccccceeeecccccc-----------ccccccee
Confidence            33444559999999 998887 9999999999999875          5778888888532           22456888


Q ss_pred             Ee-------eCHhHH-hccccEEEeCC
Q psy450           93 VL-------IRKQIQ-KLFLKTINVLP  111 (478)
Q Consensus        93 ia-------ld~al~-rRf~~~i~~~~  111 (478)
                      |+       +||++. +||++.|++|+
T Consensus       106 I~ttn~~~~i~~~l~~~rf~~~i~~~~  132 (132)
T PF00004_consen  106 IATTNSPDKIDPALLRSRFDRRIEFPL  132 (132)
T ss_dssp             EEEESSGGGSCHHHHSTTSEEEEEE-S
T ss_pred             EEeeCChhhCCHhHHhCCCcEEEEcCC
Confidence            88       999999 89999999974

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 ....

>PRK15115 response regulator GlrR; Provisional

Probab=98.46  E-value=7.2e-06  Score=84.95  Aligned_cols=149  Identities=24%  Similarity=0.353  Sum_probs=82.3

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhh-----cchH
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYI-----GQSE  279 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~-----g~~~  279 (478)
                      .++|.......+.+.......    ....++++|++|||||++|+++.+..   +.+|+.++|..+.....     |...
T Consensus       135 ~lig~s~~~~~~~~~~~~~a~----~~~~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~~~~~~~lfg~~~  210 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVAQ----SDVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQLLESELFGHAR  210 (444)
T ss_pred             cccccCHHHHHHHHHHHhhcc----CCCeEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCHHHHHHHhcCCCc
Confidence            355555444444333333221    14459999999999999999998765   47899999976532211     1100


Q ss_pred             H-------HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----C----CCCeEEEE
Q psy450          280 E-------NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----T----SQDVFILG  343 (478)
Q Consensus       280 ~-------~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----~----~~~v~vI~  343 (478)
                      .       .....+..   ....+|||||+|.|..             .....|+..++.-.     .    ..++.+|+
T Consensus       211 ~~~~~~~~~~~g~~~~---a~~gtl~l~~i~~l~~-------------~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~  274 (444)
T PRK15115        211 GAFTGAVSNREGLFQA---AEGGTLFLDEIGDMPA-------------PLQVKLLRVLQERKVRPLGSNRDIDIDVRIIS  274 (444)
T ss_pred             CCCCCCccCCCCcEEE---CCCCEEEEEccccCCH-------------HHHHHHHHHHhhCCEEeCCCCceeeeeEEEEE
Confidence            0       00011222   2245999999999973             34455555554211     1    12578888


Q ss_pred             EcCCCCCCCccccCCCCCCe-------EEEeCCCCCHHHHHHH
Q psy450          344 ATNRVDLLDPAILRPGRLDK-------SLYVGLYEDRISQLGV  379 (478)
Q Consensus       344 ttn~~~~ld~~l~~~~Rf~~-------~i~~~~pp~~~~r~~i  379 (478)
                      ||+..  ++..+.+ |+|..       .+.+.+||-++.+.+|
T Consensus       275 ~~~~~--l~~~~~~-~~f~~~l~~~l~~~~i~lPpLr~R~eDi  314 (444)
T PRK15115        275 ATHRD--LPKAMAR-GEFREDLYYRLNVVSLKIPALAERTEDI  314 (444)
T ss_pred             eCCCC--HHHHHHc-CCccHHHHHhhceeeecCCChHhccccH
Confidence            88863  3333222 45422       3344556655544444

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=98.45  E-value=1.5e-06  Score=83.16  Aligned_cols=117  Identities=16%  Similarity=0.117  Sum_probs=81.7

Q ss_pred             CCCCceEEEeCCCCChHHHHHHHHHHHhCCc----------------EEEEechhhhhhhhcchHHHHHHHHHHhH----
Q psy450          231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMN----------------FLAVKGPELLNKYIGQSEENIRNVFLKAR----  290 (478)
Q Consensus       231 ~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~----------------~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----  290 (478)
                      +.-++.+||+||+|+||+.+|.++|..+-+.                ++.+.... .+.  .-.-..++++...+.    
T Consensus        16 ~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~-~~~--~I~idqiR~l~~~~~~~p~   92 (290)
T PRK05917         16 QKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQG-KGR--LHSIETPRAIKKQIWIHPY   92 (290)
T ss_pred             CCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCC-CCC--cCcHHHHHHHHHHHhhCcc
Confidence            3347889999999999999999999887432                22221100 000  012344555555443    


Q ss_pred             hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeC
Q psy450          291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVG  368 (478)
Q Consensus       291 ~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~  368 (478)
                      .+...|++||++|.+.             ....+.|++.++.  +..++++|..|+.++.+.|.+++  |+. .+.++
T Consensus        93 e~~~kv~ii~~ad~mt-------------~~AaNaLLK~LEE--Pp~~~~fiL~~~~~~~ll~TI~S--Rcq-~~~~~  152 (290)
T PRK05917         93 ESPYKIYIIHEADRMT-------------LDAISAFLKVLED--PPQHGVIILTSAKPQRLPPTIRS--RSL-SIHIP  152 (290)
T ss_pred             CCCceEEEEechhhcC-------------HHHHHHHHHHhhc--CCCCeEEEEEeCChhhCcHHHHh--cce-EEEcc
Confidence            2334699999999997             4678999999995  56678888889999999999999  884 44554

>KOG2228|consensus

Probab=98.42  E-value=2.3e-06  Score=81.43  Aligned_cols=164  Identities=18%  Similarity=0.322  Sum_probs=105.3

Q ss_pred             cccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHH---HHHhCCcEEEEechhhh-----------
Q psy450          206 WEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAV---ATECRMNFLAVKGPELL-----------  271 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~l---a~~~~~~~~~v~~~~l~-----------  271 (478)
                      .-.+.|..+..+.+.+.+..-.....  .+++++.||.|+|||.+....   +++.|.+++.+......           
T Consensus        23 ~~~l~g~~~~~~~l~~~lkqt~~~gE--snsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~  100 (408)
T KOG2228|consen   23 HINLFGVQDEQKHLSELLKQTILHGE--SNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGIT  100 (408)
T ss_pred             CcceeehHHHHHHHHHHHHHHHHhcC--CCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHH
Confidence            34567888888888877766533222  567999999999999976554   33667777665432111           


Q ss_pred             ----------hhhhcchHHHHHHHHHHhHhC-----CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCC
Q psy450          272 ----------NKYIGQSEENIRNVFLKARSA-----APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTS  336 (478)
Q Consensus       272 ----------~~~~g~~~~~~~~~~~~a~~~-----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  336 (478)
                                .+..|....++..++...+..     .+.|.++||||..++..         -+..++.++..-+  ...
T Consensus       101 rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~---------rQtllYnlfDisq--s~r  169 (408)
T KOG2228|consen  101 RQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHS---------RQTLLYNLFDISQ--SAR  169 (408)
T ss_pred             HHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccch---------hhHHHHHHHHHHh--hcC
Confidence                      112344444555555544332     23456688999988642         1345555554433  235


Q ss_pred             CCeEEEEEcCCCCC---CCccccCCCCCCeE-EEeCCCCCHHHHHHHHHHHH
Q psy450          337 QDVFILGATNRVDL---LDPAILRPGRLDKS-LYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       337 ~~v~vI~ttn~~~~---ld~~l~~~~Rf~~~-i~~~~pp~~~~r~~il~~~~  384 (478)
                      .+++||+.|.+.+.   +...+.+  ||... |+++.+....+..++++..+
T Consensus       170 ~Piciig~Ttrld~lE~LEKRVKS--RFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  170 APICIIGVTTRLDILELLEKRVKS--RFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             CCeEEEEeeccccHHHHHHHHHHh--hcccceeeccCCCChHHHHHHHHHHh
Confidence            68999999988754   5677788  99977 67766556778888888766

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.39  E-value=3.5e-06  Score=87.78  Aligned_cols=195  Identities=17%  Similarity=0.238  Sum_probs=101.9

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh-----hcch
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY-----IGQS  278 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~-----~g~~  278 (478)
                      ..++|.......+.+.+......    ...+++.|++||||+++|+++....   +.+|+.++|..+....     .|..
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a~~----~~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~~~~~~~lfg~~  209 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLSRS----DITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPKDLIESELFGHE  209 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHhCc----CCeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCHHHHHHHhcCCC
Confidence            34677766666666555443211    4569999999999999999998765   5689999997653221     1111


Q ss_pred             HHHHHHH----HHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCeEEEEEc
Q psy450          279 EENIRNV----FLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDVFILGAT  345 (478)
Q Consensus       279 ~~~~~~~----~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~vI~tt  345 (478)
                      .......    .........+.|||||++.|..             .....|+..++.-.         ...++.+|++|
T Consensus       210 ~~~~~~~~~~~~g~~~~a~~gtl~l~ei~~l~~-------------~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~  276 (463)
T TIGR01818       210 KGAFTGANTRRQGRFEQADGGTLFLDEIGDMPL-------------DAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAAT  276 (463)
T ss_pred             CCCCCCcccCCCCcEEECCCCeEEEEchhhCCH-------------HHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeC
Confidence            0000000    0001122346899999999973             33445555443211         11256788888


Q ss_pred             CCCC-------CCCccccCCCCCCeEEEeCCCCCHH---HHHHHHHHHHhcC----CCC-CCCCHHHHHHhcCCCCCH--
Q psy450          346 NRVD-------LLDPAILRPGRLDKSLYVGLYEDRI---SQLGVLKAVVRKF----KLS-DDVSLDSLVHHFPSQMSG--  408 (478)
Q Consensus       346 n~~~-------~ld~~l~~~~Rf~~~i~~~~pp~~~---~r~~il~~~~~~~----~~~-~~~~~~~la~~~~~~~sg--  408 (478)
                      +..-       .+.+.+..  |+. .+.+.+||-++   +...++..+++..    +.. ...+-+.+.....-++.|  
T Consensus       277 ~~~l~~~~~~~~f~~~L~~--rl~-~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNv  353 (463)
T TIGR01818       277 HQNLEALVRQGKFREDLFH--RLN-VIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQLRWPGNV  353 (463)
T ss_pred             CCCHHHHHHcCCcHHHHHH--HhC-cceecCCCcccchhhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChH
Confidence            7642       23334433  443 23444455443   3334444444322    111 122222222222123433  


Q ss_pred             HHHHHHHHHHHHH
Q psy450          409 ADIYSICSNAWTR  421 (478)
Q Consensus       409 ~di~~l~~~a~~~  421 (478)
                      ++|++++..|+..
T Consensus       354 reL~~~~~~~~~~  366 (463)
T TIGR01818       354 RQLENLCRWLTVM  366 (463)
T ss_pred             HHHHHHHHHHHHh
Confidence            6777777776643

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>KOG1970|consensus

Probab=98.37  E-value=2.3e-05  Score=79.36  Aligned_cols=68  Identities=24%  Similarity=0.280  Sum_probs=47.9

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhh-hhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGV-NRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~-~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      ..+.+...+++.-..+-...++..+... ...++...+-+||+||+||||||.++.+++++|..+..-.
T Consensus        74 eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew~  142 (634)
T KOG1970|consen   74 EKYKPRTLEELAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEWS  142 (634)
T ss_pred             HhcCcccHHHHhhhHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhhCceeeeec
Confidence            3445566677766655555566555522 2233444667889999999999999999999998887654

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.33  E-value=3.5e-06  Score=88.81  Aligned_cols=189  Identities=14%  Similarity=0.083  Sum_probs=108.8

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCC--cEEEEechhhhhhhhcch--HHHH--------HHHHHHhHhCCCeEEEEcCC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRM--NFLAVKGPELLNKYIGQS--EENI--------RNVFLKARSAAPCVVFFDEL  302 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~--~~~~v~~~~l~~~~~g~~--~~~~--------~~~~~~a~~~~p~il~iDei  302 (478)
                      .|++|.|++|+|||+++++++..+..  +|..+...--....+|..  +..+        ..++..|   ...|||+||+
T Consensus        26 gGv~i~g~~G~~ks~~~r~l~~llp~~~p~r~~p~~~t~~~L~Gg~Dl~~~l~~g~~~~~pGlla~A---h~GvL~lDe~  102 (584)
T PRK13406         26 GGVVLRARAGPVRDRWLAALRALLPAGTPLRRLPPGIADDRLLGGLDLAATLRAGRPVAQRGLLAEA---DGGVLVLAMA  102 (584)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhcCCCCCcccCCCCCcHHHccCCchHHhHhhcCCcCCCCCceeec---cCCEEEecCc
Confidence            57999999999999999999998854  666554322112222221  1111        1122222   1259999999


Q ss_pred             ccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----------CCCCeEEEEEcCCC---CCCCccccCCCCCCeEEEeC
Q psy450          303 DSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----------TSQDVFILGATNRV---DLLDPAILRPGRLDKSLYVG  368 (478)
Q Consensus       303 d~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~v~vI~ttn~~---~~ld~~l~~~~Rf~~~i~~~  368 (478)
                      ..+.             ..++..|+..|+.-.           ...++++|++-|..   +.++++++.  ||+..+.+.
T Consensus       103 n~~~-------------~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLD--Rf~l~v~v~  167 (584)
T PRK13406        103 ERLE-------------PGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALAD--RLAFHLDLD  167 (584)
T ss_pred             ccCC-------------HHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHh--heEEEEEcC
Confidence            8886             467888888876421           13468888874432   348889999  999999998


Q ss_pred             CCCCHHHH------HHHHHHH--HhcCCCCCCCCHHHHHHhc-CCCC-CHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCc
Q psy450          369 LYEDRISQ------LGVLKAV--VRKFKLSDDVSLDSLVHHF-PSQM-SGADIYSICSNAWTRAIRRIITSAPQVKSAPV  438 (478)
Q Consensus       369 ~pp~~~~r------~~il~~~--~~~~~~~~~~~~~~la~~~-~~~~-sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~  438 (478)
                      .|+..+.+      .+|....  +.+..++... +..++..+ ..|. +.+--..+++-|...|.-+          ...
T Consensus       168 ~~~~~~~~~~~~~~~~I~~AR~rl~~v~v~~~~-l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~----------Gr~  236 (584)
T PRK13406        168 GLALRDAREIPIDADDIAAARARLPAVGPPPEA-IAALCAAAAALGIASLRAPLLALRAARAAAALA----------GRT  236 (584)
T ss_pred             CCChHHhcccCCCHHHHHHHHHHHccCCCCHHH-HHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHc----------CCC
Confidence            75433322      1233222  2222222211 22222211 0133 4444444555555444433          355


Q ss_pred             cccHHHHHhchhcc
Q psy450          439 IVTMDDFLGACSLA  452 (478)
Q Consensus       439 ~it~~d~~~A~~~~  452 (478)
                      .|+.+|+.+|+...
T Consensus       237 ~V~~~dv~~Aa~lv  250 (584)
T PRK13406        237 AVEEEDLALAARLV  250 (584)
T ss_pred             CCCHHHHHHHHHHH
Confidence            79999999995543

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=98.32  E-value=8.1e-06  Score=84.48  Aligned_cols=148  Identities=23%  Similarity=0.340  Sum_probs=81.9

Q ss_pred             ccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh-----hcchHH
Q psy450          209 IGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY-----IGQSEE  280 (478)
Q Consensus       209 i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~-----~g~~~~  280 (478)
                      +.|.......+...+....    .....++++|.+||||+++|+++....   +.+|+.++|..+....     .|....
T Consensus       141 lig~s~~~~~~~~~i~~~~----~~~~~vli~ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~~~~~~~lfg~~~~  216 (441)
T PRK10365        141 MVGKSPAMQHLLSEIALVA----PSEATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNESLLESELFGHEKG  216 (441)
T ss_pred             eEecCHHHHHHHHHHhhcc----CCCCeEEEEecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCHHHHHHHhcCCCCC
Confidence            4555555444444333222    114569999999999999999997654   4689999997653221     111000


Q ss_pred             HH-------HHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC---------CCCeEEEEE
Q psy450          281 NI-------RNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT---------SQDVFILGA  344 (478)
Q Consensus       281 ~~-------~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~---------~~~v~vI~t  344 (478)
                      ..       ...+   .....++|||||++.|.+             .....|+..++.-..         ..++.+|++
T Consensus       217 ~~~~~~~~~~g~~---~~a~~gtl~ldei~~l~~-------------~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~  280 (441)
T PRK10365        217 AFTGADKRREGRF---VEADGGTLFLDEIGDISP-------------MMQVRLLRAIQEREVQRVGSNQTISVDVRLIAA  280 (441)
T ss_pred             CcCCCCcCCCCce---eECCCCEEEEeccccCCH-------------HHHHHHHHHHccCcEEeCCCCceeeeceEEEEe
Confidence            00       0011   122356999999999973             344555555543210         124678888


Q ss_pred             cCCCCCCCccccCCCCCCe-------EEEeCCCCCHHHHHHH
Q psy450          345 TNRVDLLDPAILRPGRLDK-------SLYVGLYEDRISQLGV  379 (478)
Q Consensus       345 tn~~~~ld~~l~~~~Rf~~-------~i~~~~pp~~~~r~~i  379 (478)
                      |+.+-   .....+|+|..       .+.+.+||-++.+.+|
T Consensus       281 t~~~~---~~~~~~~~~~~~l~~~l~~~~i~~ppLreR~~Di  319 (441)
T PRK10365        281 THRDL---AAEVNAGRFRQDLYYRLNVVAIEVPSLRQRREDI  319 (441)
T ss_pred             CCCCH---HHHHHcCCchHHHHHHhccceecCCChhhcchhH
Confidence            77642   12222345532       3455556666544433

>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=98.31  E-value=2.6e-06  Score=81.67  Aligned_cols=138  Identities=18%  Similarity=0.301  Sum_probs=76.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc---EEEEechhhhhhhhcchHHHHHHHHHHh-----------HhCCCeEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN---FLAVKGPELLNKYIGQSEENIRNVFLKA-----------RSAAPCVVFF  299 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~---~~~v~~~~l~~~~~g~~~~~~~~~~~~a-----------~~~~p~il~i  299 (478)
                      ..++||+||+|||||++++.+-..+...   ...++++...      +...+..+++..           ..+...|+||
T Consensus        33 ~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~T------ts~~~q~~ie~~l~k~~~~~~gP~~~k~lv~fi  106 (272)
T PF12775_consen   33 GRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQT------TSNQLQKIIESKLEKRRGRVYGPPGGKKLVLFI  106 (272)
T ss_dssp             TEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TTH------HHHHHHHCCCTTECECTTEEEEEESSSEEEEEE
T ss_pred             CCcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCCC------CHHHHHHHHhhcEEcCCCCCCCCCCCcEEEEEe
Confidence            5579999999999999999887766432   2334443221      222222222211           1123479999


Q ss_pred             cCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC--------CCCeEEEEEcCCCC---CCCccccCCCCCCeEEEeC
Q psy450          300 DELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT--------SQDVFILGATNRVD---LLDPAILRPGRLDKSLYVG  368 (478)
Q Consensus       300 Deid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--------~~~v~vI~ttn~~~---~ld~~l~~~~Rf~~~i~~~  368 (478)
                      ||+..-.+...+    +...-+++.+++..- |+-+        -.++.+|++.+.+.   .+++.+.|  .| ..+.++
T Consensus       107 DDlN~p~~d~yg----tq~~iElLRQ~i~~~-g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is~R~~r--~f-~i~~~~  178 (272)
T PF12775_consen  107 DDLNMPQPDKYG----TQPPIELLRQLIDYG-GFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLR--HF-NILNIP  178 (272)
T ss_dssp             ETTT-S---TTS------HHHHHHHHHHHCS-EEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHT--TE-EEEE--
T ss_pred             cccCCCCCCCCC----CcCHHHHHHHHHHhc-CcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhh--he-EEEEec
Confidence            999877654321    111234555555431 2111        12577888887542   36777886  55 577787


Q ss_pred             CCCCHHHHHHHHHHHHhc
Q psy450          369 LYEDRISQLGVLKAVVRK  386 (478)
Q Consensus       369 ~pp~~~~r~~il~~~~~~  386 (478)
                      . |+.+....|+..++..
T Consensus       179 ~-p~~~sl~~If~~il~~  195 (272)
T PF12775_consen  179 Y-PSDESLNTIFSSILQS  195 (272)
T ss_dssp             ---TCCHHHHHHHHHHHH
T ss_pred             C-CChHHHHHHHHHHHhh
Confidence            6 6888888888776653

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.29  E-value=3.3e-05  Score=80.05  Aligned_cols=205  Identities=11%  Similarity=0.166  Sum_probs=125.2

Q ss_pred             CCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhccc--cEEEeCC
Q psy450           44 NLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLFL--KTINVLP  111 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf~--~~i~~~~  111 (478)
                      ++++|+|||++.+.+++ ....++..++.+.           ..+..+++.+         +++.+++||.  ..+.+..
T Consensus       211 ~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~-----------~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~  279 (450)
T PRK00149        211 SVDVLLIDDIQFLAGKERTQEEFFHTFNALH-----------EAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEP  279 (450)
T ss_pred             cCCEEEEehhhhhcCCHHHHHHHHHHHHHHH-----------HCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecC
Confidence            58899999999998765 2334555555321           2233354444         6788889996  4899999


Q ss_pred             CCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhh
Q psy450          112 LTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       112 P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      ||.++|.+|++......  .+..+.+.++.|+....| +...+..++......+..    .+.+++.+.+..++..+...
T Consensus       280 pd~~~r~~il~~~~~~~--~~~l~~e~l~~ia~~~~~-~~R~l~~~l~~l~~~~~~----~~~~it~~~~~~~l~~~~~~  352 (450)
T PRK00149        280 PDLETRIAILKKKAEEE--GIDLPDEVLEFIAKNITS-NVRELEGALNRLIAYASL----TGKPITLELAKEALKDLLAA  352 (450)
T ss_pred             CCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHcCcCC-CHHHHHHHHHHHHHHHHh----hCCCCCHHHHHHHHHHhhcc
Confidence            99999999999999775  445566667999988764 556666666665554432    35679999888888876311


Q ss_pred             cccCCCCCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          192 YSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       192 ~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ..              .-+..+.+.+.+.+.....       ..  =|.|+.-.-+-..+|.+|-.+-..+...+..++.
T Consensus       353 ~~--------------~~~~~~~i~~~v~~~~~i~-------~~--~l~~~~R~~~~~~aR~iamyl~~~~~~~s~~~Ig  409 (450)
T PRK00149        353 QK--------------KKITIENIQKVVAEYYNIK-------VS--DLKSKSRTRNIARPRQIAMYLAKELTDLSLPEIG  409 (450)
T ss_pred             CC--------------CCCCHHHHHHHHHHHcCCC-------HH--HHhCCCCCcccChHHHHHHHHHHHhcCCCHHHHH
Confidence            10              0122344444444332211       11  1234444444456777766665555555555655


Q ss_pred             hhhhcchHHHHHHHHHHh
Q psy450          272 NKYIGQSEENIRNVFLKA  289 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a  289 (478)
                      ..+-|.....+....++.
T Consensus       410 ~~fg~rdhstV~~a~~~i  427 (450)
T PRK00149        410 RAFGGRDHTTVLHAVRKI  427 (450)
T ss_pred             HHcCCCCHhHHHHHHHHH
Confidence            444345555555444443

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.27  E-value=6.5e-05  Score=78.86  Aligned_cols=206  Identities=14%  Similarity=0.135  Sum_probs=124.7

Q ss_pred             cCCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhccc--cEEEeC
Q psy450           43 YNLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLFL--KTINVL  110 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf~--~~i~~~  110 (478)
                      .++++|+|||++.+.++. ....++..++.+.           +.+..|+|.+         +++.|++||.  ..+.+.
T Consensus       376 ~~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~-----------e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~  444 (617)
T PRK14086        376 REMDILLVDDIQFLEDKESTQEEFFHTFNTLH-----------NANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQ  444 (617)
T ss_pred             hcCCEEEEehhccccCCHHHHHHHHHHHHHHH-----------hcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcC
Confidence            358999999999998865 2334455555431           2344566655         7899999995  566999


Q ss_pred             CCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhh
Q psy450          111 PLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQS  190 (478)
Q Consensus       111 ~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~  190 (478)
                      .||.+.|.+||+......  .+..+.+.+++|+.+.++ +...++.++..-...+..    .+.+++.+.....++.+.+
T Consensus       445 ~PD~EtR~aIL~kka~~r--~l~l~~eVi~yLa~r~~r-nvR~LegaL~rL~a~a~~----~~~~itl~la~~vL~~~~~  517 (617)
T PRK14086        445 PPELETRIAILRKKAVQE--QLNAPPEVLEFIASRISR-NIRELEGALIRVTAFASL----NRQPVDLGLTEIVLRDLIP  517 (617)
T ss_pred             CCCHHHHHHHHHHHHHhc--CCCCCHHHHHHHHHhccC-CHHHHHHHHHHHHHHHHh----hCCCCCHHHHHHHHHHhhc
Confidence            999999999999999876  456667778999998764 456666666655444432    3566888888777776543


Q ss_pred             hcccCCCCCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          191 RYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ...             ...+..+.+++.+.+.+.....         =|.|..-.-+-..+|.+|-.+-..+...+..++
T Consensus       518 ~~~-------------~~~it~d~I~~~Va~~f~v~~~---------dl~s~~R~~~i~~aRqiAMYL~r~lt~~Sl~~I  575 (617)
T PRK14086        518 EDS-------------APEITAAAIMAATADYFGLTVE---------DLCGTSRSRVLVTARQIAMYLCRELTDLSLPKI  575 (617)
T ss_pred             ccc-------------CCcCCHHHHHHHHHHHhCCCHH---------HHhCCCCCcccchHHHHHHHHHHHHcCCCHHHH
Confidence            210             0112334444444443321111         123444444455677776665444444455554


Q ss_pred             hhhhhcchHHHHHHHHHHh
Q psy450          271 LNKYIGQSEENIRNVFLKA  289 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a  289 (478)
                      ... +|.....+....++.
T Consensus       576 G~~-FgRdHSTV~~A~~kI  593 (617)
T PRK14086        576 GQQ-FGRDHTTVMHADRKI  593 (617)
T ss_pred             HHH-hCCChhHHHHHHHHH
Confidence            433 344444444444443

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=98.26  E-value=8.6e-06  Score=76.36  Aligned_cols=113  Identities=15%  Similarity=0.109  Sum_probs=79.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc----------------------EEEEechhhhhhhhcchHHHHHHHHHHhH-
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN----------------------FLAVKGPELLNKYIGQSEENIRNVFLKAR-  290 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~----------------------~~~v~~~~l~~~~~g~~~~~~~~~~~~a~-  290 (478)
                      +..+||+||+|+||..+|.++|..+-+.                      +..+....     ..-....++++.+... 
T Consensus         7 ~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~-----~~I~id~ir~l~~~l~~   81 (261)
T PRK05818          7 THPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQK-----NPIKKEDALSIINKLNR   81 (261)
T ss_pred             CcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCc-----ccCCHHHHHHHHHHHcc
Confidence            7789999999999999999999876321                      11111100     0112334444444332 


Q ss_pred             ----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEE
Q psy450          291 ----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLY  366 (478)
Q Consensus       291 ----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~  366 (478)
                          .+..-|++|+++|.+.             ....+.||+.++.  +..++++|.+|+.++.+.+.+++  |+.. +.
T Consensus        82 ~s~e~~~~KV~II~~ae~m~-------------~~AaNaLLK~LEE--Pp~~t~fiLit~~~~~lLpTI~S--RCq~-~~  143 (261)
T PRK05818         82 PSVESNGKKIYIIYGIEKLN-------------KQSANSLLKLIEE--PPKNTYGIFTTRNENNILNTILS--RCVQ-YV  143 (261)
T ss_pred             CchhcCCCEEEEeccHhhhC-------------HHHHHHHHHhhcC--CCCCeEEEEEECChHhCchHhhh--heee-ee
Confidence                1235799999999997             4678999999995  56678889999999999999999  9854 44


Q ss_pred             eCC
Q psy450          367 VGL  369 (478)
Q Consensus       367 ~~~  369 (478)
                      ++.
T Consensus       144 ~~~  146 (261)
T PRK05818        144 VLS  146 (261)
T ss_pred             cCC
Confidence            543

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=98.26  E-value=7e-07  Score=94.23  Aligned_cols=160  Identities=22%  Similarity=0.242  Sum_probs=92.7

Q ss_pred             ccccCcHHHHHHHHHHHHhh-hhh--CCCC---CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHH
Q psy450          207 EDIGGLSKLKAEILSTFRGV-NRT--SGLK---RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEE  280 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~-~~~--~~~~---~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~  280 (478)
                      -.|.|++.+|+.+.-.+-.. ...  .|..   --|+||.|.||||||.+.+.+++.+...++. ++.  .+...|.+..
T Consensus       286 PsIyG~e~VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aPr~vyt-sgk--gss~~GLTAa  362 (682)
T COG1241         286 PSIYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAPRGVYT-SGK--GSSAAGLTAA  362 (682)
T ss_pred             ccccCcHHHHHHHHHHhcCCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCCceEEE-ccc--cccccCceeE
Confidence            35789999998875433222 111  1111   3579999999999999999999888665443 211  0111222222


Q ss_pred             HHHHHH--H---Hh---HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----------CCCCeEE
Q psy450          281 NIRNVF--L---KA---RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----------TSQDVFI  341 (478)
Q Consensus       281 ~~~~~~--~---~a---~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~v~v  341 (478)
                      .+++-.  +   .+   ....++|.+|||+|.+..             .....+...|+.-.           -+.+.-|
T Consensus       363 v~rd~~tge~~LeaGALVlAD~Gv~cIDEfdKm~~-------------~dr~aihEaMEQQtIsIaKAGI~atLnARcsv  429 (682)
T COG1241         363 VVRDKVTGEWVLEAGALVLADGGVCCIDEFDKMNE-------------EDRVAIHEAMEQQTISIAKAGITATLNARCSV  429 (682)
T ss_pred             EEEccCCCeEEEeCCEEEEecCCEEEEEeccCCCh-------------HHHHHHHHHHHhcEeeecccceeeecchhhhh
Confidence            222211  0   11   123457999999999862             23344444444211           1234567


Q ss_pred             EEEcCCCC-------------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          342 LGATNRVD-------------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       342 I~ttn~~~-------------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                      +|++|...             .++++|++  |||..+.+..-|+.+.-..+..+.+
T Consensus       430 LAAaNP~~Gryd~~~~~~enI~l~~~lLS--RFDLifvl~D~~d~~~D~~ia~hil  483 (682)
T COG1241         430 LAAANPKFGRYDPKKTVAENINLPAPLLS--RFDLIFVLKDDPDEEKDEEIAEHIL  483 (682)
T ss_pred             hhhhCCCCCcCCCCCCHHHhcCCChhHHh--hCCeeEEecCCCCccchHHHHHHHH
Confidence            88888753             37889999  9998887766445543334444433

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=98.26  E-value=1.3e-05  Score=76.96  Aligned_cols=129  Identities=15%  Similarity=0.168  Sum_probs=83.7

Q ss_pred             CCCCceEEEeCCCCChHHHHHHHHHHHhCCcEE-E-Eec--------------hhhhhhh-hcc--hHHHHHHHHHHhH-
Q psy450          231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFL-A-VKG--------------PELLNKY-IGQ--SEENIRNVFLKAR-  290 (478)
Q Consensus       231 ~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~-~-v~~--------------~~l~~~~-~g~--~~~~~~~~~~~a~-  290 (478)
                      +..+..+||+||  +||+++|+.+|..+-+.-- . -.|              +++.--. .|.  .-..++++...+. 
T Consensus        21 ~rl~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~~~i~p~~~~I~idqIR~l~~~~~~   98 (290)
T PRK07276         21 DRLNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDVTVIEPQGQVIKTDTIRELVKNFSQ   98 (290)
T ss_pred             CCcceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCeeeecCCCCcCCHHHHHHHHHHHhh
Confidence            333788999996  6899999999987632110 0 000              1110000 011  2345666555443 


Q ss_pred             ---hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEe
Q psy450          291 ---SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYV  367 (478)
Q Consensus       291 ---~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~  367 (478)
                         .+...|++||++|.+.             ....|.|++.++.  +..++++|.+|+.++.+-|.+++  |+ ..+.|
T Consensus        99 ~p~~~~~kV~II~~ad~m~-------------~~AaNaLLKtLEE--Pp~~t~~iL~t~~~~~lLpTI~S--Rc-q~i~f  160 (290)
T PRK07276         99 SGYEGKQQVFIIKDADKMH-------------VNAANSLLKVIEE--PQSEIYIFLLTNDENKVLPTIKS--RT-QIFHF  160 (290)
T ss_pred             CcccCCcEEEEeehhhhcC-------------HHHHHHHHHHhcC--CCCCeEEEEEECChhhCchHHHH--cc-eeeeC
Confidence               2334699999999997             4577999999995  45568888889999999999999  98 46666


Q ss_pred             CCCCCHHHHHHHHH
Q psy450          368 GLYEDRISQLGVLK  381 (478)
Q Consensus       368 ~~pp~~~~r~~il~  381 (478)
                      +  +..+...+++.
T Consensus       161 ~--~~~~~~~~~L~  172 (290)
T PRK07276        161 P--KNEAYLIQLLE  172 (290)
T ss_pred             C--CcHHHHHHHHH
Confidence            4  34554444443

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=98.24  E-value=1.6e-05  Score=76.37  Aligned_cols=128  Identities=26%  Similarity=0.366  Sum_probs=85.5

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh----
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK----  273 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~----  273 (478)
                      .+...|+.+++.+...+.+.+........    ...+|++|.+||||-.+|+++....   ..||+.+||+.+-..    
T Consensus       198 ~~~~~F~~~v~~S~~mk~~v~qA~k~Aml----DAPLLI~GeTGTGKdLlAkaCH~~S~R~~~pFlalNCA~lPe~~aEs  273 (511)
T COG3283         198 QDVSGFEQIVAVSPKMKHVVEQAQKLAML----DAPLLITGETGTGKDLLAKACHLASPRHSKPFLALNCASLPEDAAES  273 (511)
T ss_pred             ccccchHHHhhccHHHHHHHHHHHHhhcc----CCCeEEecCCCchHHHHHHHHhhcCcccCCCeeEeecCCCchhHhHH
Confidence            35667888888877766665544333211    2349999999999999999986554   679999999766432    


Q ss_pred             -hhcchH--HHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC---------CCCeEE
Q psy450          274 -YIGQSE--ENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT---------SQDVFI  341 (478)
Q Consensus       274 -~~g~~~--~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~---------~~~v~v  341 (478)
                       .+|...  +....+|+.|..+   .+|+|||..+.+             ++...|+..+..-.-         .-+|.|
T Consensus       274 ElFG~apg~~gk~GffE~AngG---TVlLDeIgEmSp-------------~lQaKLLRFL~DGtFRRVGee~Ev~vdVRV  337 (511)
T COG3283         274 ELFGHAPGDEGKKGFFEQANGG---TVLLDEIGEMSP-------------RLQAKLLRFLNDGTFRRVGEDHEVHVDVRV  337 (511)
T ss_pred             HHhcCCCCCCCccchhhhccCC---eEEeehhhhcCH-------------HHHHHHHHHhcCCceeecCCcceEEEEEEE
Confidence             222222  3344677776555   899999988874             455666666542211         125889


Q ss_pred             EEEcCCC
Q psy450          342 LGATNRV  348 (478)
Q Consensus       342 I~ttn~~  348 (478)
                      |++|..+
T Consensus       338 Icatq~n  344 (511)
T COG3283         338 ICATQVN  344 (511)
T ss_pred             Eeccccc
Confidence            9999875

>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=98.22  E-value=3.5e-06  Score=83.87  Aligned_cols=100  Identities=20%  Similarity=0.318  Sum_probs=58.9

Q ss_pred             CCceEEEeCCCCChHHHHHHHHHHHhCC-cEEEEechhhhhh-------hhcchHHHHHHHHHHhHhCCCeEEEEcCCcc
Q psy450          233 KRSGLLLYGPPGTGKTLIAKAVATECRM-NFLAVKGPELLNK-------YIGQSEENIRNVFLKARSAAPCVVFFDELDS  304 (478)
Q Consensus       233 ~~~~iLl~Gp~GtGKT~la~~la~~~~~-~~~~v~~~~l~~~-------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~  304 (478)
                      .++|++|||++|+|||+|.-.+.+.+.. .-..+...++...       ..+ ....+..+.+..... ..+|+|||++.
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~vh~~l~~~~~-~~~~l~~va~~l~~~-~~lLcfDEF~V  138 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLRG-QDDPLPQVADELAKE-SRLLCFDEFQV  138 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHhC-CCccHHHHHHHHHhc-CCEEEEeeeec
Confidence            3899999999999999999999888754 1111111122111       111 111223333333322 24999999986


Q ss_pred             ccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          305 LAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       305 l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                      -...          ...++..|+..+=    ..++++|+|+|++
T Consensus       139 ~Dia----------DAmil~rLf~~l~----~~gvvlVaTSN~~  168 (362)
T PF03969_consen  139 TDIA----------DAMILKRLFEALF----KRGVVLVATSNRP  168 (362)
T ss_pred             cchh----------HHHHHHHHHHHHH----HCCCEEEecCCCC
Confidence            5421          1245555555442    3578999999985

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

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=98.21  E-value=3.5e-05  Score=74.68  Aligned_cols=124  Identities=15%  Similarity=0.184  Sum_probs=84.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC-------------cEEEEechhhhhhhhcchHHHHHHHHHHhH-----hCCCe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM-------------NFLAVKGPELLNKYIGQSEENIRNVFLKAR-----SAAPC  295 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~-------------~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~-----~~~p~  295 (478)
                      ++.+||+|+.|.||+.+++.+++.+-+             .+..++...   .  .-....++.+.+...     .+..-
T Consensus        18 ~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g---~--~i~vd~Ir~l~~~~~~~~~~~~~~K   92 (299)
T PRK07132         18 SHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFD---K--DLSKSEFLSAINKLYFSSFVQSQKK   92 (299)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCC---C--cCCHHHHHHHHHHhccCCcccCCce
Confidence            667899999999999999999988722             122232100   0  112234555555442     13557


Q ss_pred             EEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHH
Q psy450          296 VVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRIS  375 (478)
Q Consensus       296 il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~  375 (478)
                      |++||++|.+.             ....+.|++.++.  +...+++|.+|+.++.+-+.+++  |+ ..+.+.. ++.++
T Consensus        93 vvII~~~e~m~-------------~~a~NaLLK~LEE--Pp~~t~~il~~~~~~kll~TI~S--Rc-~~~~f~~-l~~~~  153 (299)
T PRK07132         93 ILIIKNIEKTS-------------NSLLNALLKTIEE--PPKDTYFLLTTKNINKVLPTIVS--RC-QVFNVKE-PDQQK  153 (299)
T ss_pred             EEEEecccccC-------------HHHHHHHHHHhhC--CCCCeEEEEEeCChHhChHHHHh--Ce-EEEECCC-CCHHH
Confidence            99999998886             4567899999996  45567777777788999999998  87 4567764 56666


Q ss_pred             HHHHHH
Q psy450          376 QLGVLK  381 (478)
Q Consensus       376 r~~il~  381 (478)
                      ...++.
T Consensus       154 l~~~l~  159 (299)
T PRK07132        154 ILAKLL  159 (299)
T ss_pred             HHHHHH
Confidence            555554

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.20  E-value=4.4e-05  Score=77.79  Aligned_cols=131  Identities=15%  Similarity=0.182  Sum_probs=88.7

Q ss_pred             cCCCeEEEeccccccc---chhhHhhhccccccccccccchhhhccCCCcEEEEe----------eCHhHHhccc-cEEE
Q psy450           43 YNLDIFKYDEVNYLCN---VKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----------IRKQIQKLFL-KTIN  108 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~---~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----------ld~al~rRf~-~~i~  108 (478)
                      ..+.||+|||+|.+..   ...++.++..++..             ...++.+|+          +|+.+.+||. ..|.
T Consensus       137 ~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~-------------~~~~v~vI~i~~~~~~~~~l~~~~~s~~~~~~i~  203 (394)
T PRK00411        137 DRVLIVALDDINYLFEKEGNDVLYSLLRAHEEY-------------PGARIGVIGISSDLTFLYILDPRVKSVFRPEEIY  203 (394)
T ss_pred             CCEEEEEECCHhHhhccCCchHHHHHHHhhhcc-------------CCCeEEEEEEECCcchhhhcCHHHHhcCCcceee
Confidence            4679999999999982   23566666665532             122444444          6788888774 6789


Q ss_pred             eCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCH--HHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHH
Q psy450          109 VLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFER--HDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYD  186 (478)
Q Consensus       109 ~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~--~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~  186 (478)
                      |+.++.++..+|++..+..-...-..+.+.++.+++.+.+.+|  .....+++.|+..+..+   +...|+.+|+..|+.
T Consensus       204 f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~---~~~~I~~~~v~~a~~  280 (394)
T PRK00411        204 FPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAERE---GSRKVTEEDVRKAYE  280 (394)
T ss_pred             cCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHc---CCCCcCHHHHHHHHH
Confidence            9999999999999998854211112344555888888755332  33346666666665433   457899999999998


Q ss_pred             Hhh
Q psy450          187 DLQ  189 (478)
Q Consensus       187 ~~~  189 (478)
                      .+.
T Consensus       281 ~~~  283 (394)
T PRK00411        281 KSE  283 (394)
T ss_pred             HHH
Confidence            774

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.19  E-value=7.6e-06  Score=71.86  Aligned_cols=109  Identities=18%  Similarity=0.261  Sum_probs=61.4

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh----------------------hcc--hHHHHHHHHHHh
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY----------------------IGQ--SEENIRNVFLKA  289 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~----------------------~g~--~~~~~~~~~~~a  289 (478)
                      ++++||||+|||+++..++...   +.++++++........                      ...  ...........+
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLLSKAERLR   81 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHHHHHHHHH
Confidence            6899999999999999998877   5667776654332110                      000  111112233445


Q ss_pred             HhCCCeEEEEcCCccccCCCCC-CCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          290 RSAAPCVVFFDELDSLAPRRGQ-EDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       290 ~~~~p~il~iDeid~l~~~~~~-~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      ....|.+++|||+..+...... .........+.+..+.....    ..++.+|++++.+.
T Consensus        82 ~~~~~~~lviDe~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~----~~~~~vv~~~~~~~  138 (165)
T cd01120          82 ERGGDDLIILDELTRLVRALREIREGYPGELDEELRELLERAR----KGGVTVIFTLQVPS  138 (165)
T ss_pred             hCCCCEEEEEEcHHHHHHHHHHHHhcCChHHHHHHHHHHHHHh----cCCceEEEEEecCC
Confidence            6677889999999988643210 00111122333444443332    23566666666554

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.

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=98.18  E-value=1.7e-05  Score=73.96  Aligned_cols=65  Identities=25%  Similarity=0.334  Sum_probs=49.1

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCcccc
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLA  306 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~  306 (478)
                      .+-.+.||+|||||.+++.+|+.+|.+++.++|++-.      ....+..+|.-+... .+-+++||++.+.
T Consensus        33 ~~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~------~~~~l~ril~G~~~~-GaW~cfdefnrl~   97 (231)
T PF12774_consen   33 LGGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQM------DYQSLSRILKGLAQS-GAWLCFDEFNRLS   97 (231)
T ss_dssp             TEEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-------HHHHHHHHHHHHHH-T-EEEEETCCCSS
T ss_pred             CCCCCcCCCCCCchhHHHHHHHHhCCeEEEecccccc------cHHHHHHHHHHHhhc-Cchhhhhhhhhhh
Confidence            3467899999999999999999999999999997643      445566666554433 2689999999987

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.18  E-value=5.9e-05  Score=77.12  Aligned_cols=127  Identities=12%  Similarity=0.218  Sum_probs=90.5

Q ss_pred             CCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhcccc--EEEeCC
Q psy450           44 NLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLFLK--TINVLP  111 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf~~--~i~~~~  111 (478)
                      .+++|+|||++.+.+++ ....++..++.+.           ..+..+++.+         +++.+.+||..  .+.|+.
T Consensus       199 ~~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~-----------~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~  267 (405)
T TIGR00362       199 SVDLLLIDDIQFLAGKERTQEEFFHTFNALH-----------ENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEP  267 (405)
T ss_pred             hCCEEEEehhhhhcCCHHHHHHHHHHHHHHH-----------HCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCC
Confidence            47899999999998864 2334555555321           1223344444         67888899974  799999


Q ss_pred             CCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          112 LTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       112 P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      ||.++|.+|++..+...  .+..+.+.++.+|....| +..+++.++......+..    .+.+++.+....++...
T Consensus       268 pd~~~r~~il~~~~~~~--~~~l~~e~l~~ia~~~~~-~~r~l~~~l~~l~~~a~~----~~~~it~~~~~~~L~~~  337 (405)
T TIGR00362       268 PDLETRLAILQKKAEEE--GLELPDEVLEFIAKNIRS-NVRELEGALNRLLAYASL----TGKPITLELAKEALKDL  337 (405)
T ss_pred             CCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHH----hCCCCCHHHHHHHHHHh
Confidence            99999999999999876  445566667999987764 567777777766555432    34678888887777754

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).

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.16  E-value=8.1e-05  Score=74.98  Aligned_cols=143  Identities=13%  Similarity=0.147  Sum_probs=90.2

Q ss_pred             hhhhHHHHhhh-hcCCCeEEEecccccccc--hhhHhhhccccccccccccchhhhccCCCcEEEEe----------eCH
Q psy450           31 HLNDIVKINLK-KYNLDIFKYDEVNYLCNV--KYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----------IRK   97 (478)
Q Consensus        31 ~~~~if~~~a~-~~~p~ilfiDe~d~i~~~--r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----------ld~   97 (478)
                      .++.+++ ... ..++.||+|||+|.+.+.  ..++.++...+..           ...+.++.+|+          +++
T Consensus       116 ~~~~l~~-~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~-----------~~~~~~v~lI~i~n~~~~~~~l~~  183 (365)
T TIGR02928       116 VFRRLYK-ELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNG-----------DLDNAKVGVIGISNDLKFRENLDP  183 (365)
T ss_pred             HHHHHHH-HHHhcCCeEEEEECchhhhccCCcHHHHhHhcccccc-----------CCCCCeEEEEEEECCcchHhhcCH
Confidence            3455665 443 345789999999999743  2455555442210           02224455555          788


Q ss_pred             hHHhccc-cEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHH---HHhcCCCCHHHHHHHHHHHHHHHHHhhcCCC
Q psy450           98 QIQKLFL-KTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYL---SSVTSGFERHDLTCLVRLSVKNKMLKQGINK  173 (478)
Q Consensus        98 al~rRf~-~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~l---a~~t~G~s~~di~~l~~~a~~~a~~~~~~~~  173 (478)
                      .+.+||. ..|.|+.++.++..+|++..+.....+...+.+.++.+   +..+.|.. .....+|+.|+..+..+   +.
T Consensus       184 ~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~-R~al~~l~~a~~~a~~~---~~  259 (365)
T TIGR02928       184 RVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDA-RKAIDLLRVAGEIAERE---GA  259 (365)
T ss_pred             HHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCH-HHHHHHHHHHHHHHHHc---CC
Confidence            8888985 67999999999999999998863111111233333444   44444533 34455677777666533   45


Q ss_pred             CCCCHHHHHHHHHHhh
Q psy450          174 RDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       174 ~~it~~d~~~a~~~~~  189 (478)
                      ..|+.+|+..|...+.
T Consensus       260 ~~it~~~v~~a~~~~~  275 (365)
T TIGR02928       260 ERVTEDHVEKAQEKIE  275 (365)
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            6799999999988774

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.

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.16  E-value=0.00027  Score=79.46  Aligned_cols=133  Identities=19%  Similarity=0.256  Sum_probs=84.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh------hhhhhcchHH---HHHHHHHHhHhCCCeEEEEcCCcccc
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL------LNKYIGQSEE---NIRNVFLKARSAAPCVVFFDELDSLA  306 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l------~~~~~g~~~~---~~~~~~~~a~~~~p~il~iDeid~l~  306 (478)
                      .+|+.||+.+|||++...+|.+.|-.|+.++..+.      ++.|+.....   .-..++-.|.+.+ .-|++||+....
T Consensus       890 P~LiQGpTSSGKTSMI~yla~~tghkfVRINNHEHTdlqeYiGTyvTdd~G~lsFkEGvLVeAlR~G-yWIVLDELNLAp  968 (4600)
T COG5271         890 PLLIQGPTSSGKTSMILYLARETGHKFVRINNHEHTDLQEYIGTYVTDDDGSLSFKEGVLVEALRRG-YWIVLDELNLAP  968 (4600)
T ss_pred             cEEEecCCCCCcchHHHHHHHHhCccEEEecCcccchHHHHhhceeecCCCceeeehhHHHHHHhcC-cEEEeeccccCc
Confidence            49999999999999999999999999999986443      3333322211   1223444443333 378899986543


Q ss_pred             CCCCCCCCCchhHHHHHHHHHHhhcC---------CCCCCCeEEEEEcCCCC------CCCccccCCCCCCeEEEeCCCC
Q psy450          307 PRRGQEDQSSGVMDRVVSQLLAEMDG---------VHTSQDVFILGATNRVD------LLDPAILRPGRLDKSLYVGLYE  371 (478)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~ll~~l~~---------~~~~~~v~vI~ttn~~~------~ld~~l~~~~Rf~~~i~~~~pp  371 (478)
                      ..          .-++++.|+.--..         +.+.+++.+++|-|.|.      -+..+++.  ||-...+...| 
T Consensus       969 TD----------VLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~YgGRK~LSrAFRN--RFlE~hFddip- 1035 (4600)
T COG5271         969 TD----------VLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYGGRKGLSRAFRN--RFLEMHFDDIP- 1035 (4600)
T ss_pred             HH----------HHHHHHHhhccccceecCCcceeeccCCCeeEEeecCCCccccchHHHHHHHHh--hhHhhhcccCc-
Confidence            11          12445555432111         12244688888888874      36778888  99655555554 


Q ss_pred             CHHHHHHHHHHH
Q psy450          372 DRISQLGVLKAV  383 (478)
Q Consensus       372 ~~~~r~~il~~~  383 (478)
                       +.+.+.||...
T Consensus      1036 -edEle~ILh~r 1046 (4600)
T COG5271        1036 -EDELEEILHGR 1046 (4600)
T ss_pred             -HHHHHHHHhcc
Confidence             55666777543

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.15  E-value=0.00013  Score=81.96  Aligned_cols=130  Identities=21%  Similarity=0.232  Sum_probs=78.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh------hh-hcc--hHHH-HHHHHHHhHhCCCeEEEEcCCc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN------KY-IGQ--SEEN-IRNVFLKARSAAPCVVFFDELD  303 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~------~~-~g~--~~~~-~~~~~~~a~~~~p~il~iDeid  303 (478)
                      .+++||-|.||+|||++..++|++.|..++.++.++-..      .+ .++  .+-. ...-|-.|.+.+ .-+++||+.
T Consensus      1543 ~kpilLEGsPGVGKTSlItaLAr~tG~kliRINLSeQTdL~DLfGsd~Pve~~Gef~w~dapfL~amr~G-~WVlLDEiN 1621 (4600)
T COG5271        1543 GKPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQTDLCDLFGSDLPVEEGGEFRWMDAPFLHAMRDG-GWVLLDEIN 1621 (4600)
T ss_pred             CCceeecCCCCccHHHHHHHHHHHhcCceEEeeccccchHHHHhCCCCCcccCceeEecccHHHHHhhcC-CEEEeehhh
Confidence            456999999999999999999999999999999765321      11 111  1111 122233343332 478899987


Q ss_pred             cccCCCCCCCCCchhHHHHHHHHHHhhcCC------------CCCCCeEEEEEcCCC------CCCCccccCCCCCCeEE
Q psy450          304 SLAPRRGQEDQSSGVMDRVVSQLLAEMDGV------------HTSQDVFILGATNRV------DLLDPAILRPGRLDKSL  365 (478)
Q Consensus       304 ~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~------------~~~~~v~vI~ttn~~------~~ld~~l~~~~Rf~~~i  365 (478)
                      ...             +.++..|=..+|.-            .-.+++.|+++-|.-      ..+|..++.  ||. ++
T Consensus      1622 LaS-------------QSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq~qggGRKgLPkSF~n--RFs-vV 1685 (4600)
T COG5271        1622 LAS-------------QSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQDQGGGRKGLPKSFLN--RFS-VV 1685 (4600)
T ss_pred             hhH-------------HHHHHHHHHHHhhccccccccccceeeccCCeeeeeecCchhcCCCcccCCHHHhh--hhh-eE
Confidence            554             33444443333321            113467777777654      348888988  995 45


Q ss_pred             EeCCCCCHHHHHHHHH
Q psy450          366 YVGLYEDRISQLGVLK  381 (478)
Q Consensus       366 ~~~~pp~~~~r~~il~  381 (478)
                      ++.. .+.++...|..
T Consensus      1686 ~~d~-lt~dDi~~Ia~ 1700 (4600)
T COG5271        1686 KMDG-LTTDDITHIAN 1700 (4600)
T ss_pred             Eecc-cccchHHHHHH
Confidence            5554 24444444443

>PF05729 NACHT: NACHT domain

Probab=98.14  E-value=2.7e-05  Score=68.66  Aligned_cols=140  Identities=16%  Similarity=0.189  Sum_probs=70.5

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCC--------c-EEEEechhhhhh------------hhcchHHHHHHHH-HHhHhCC
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRM--------N-FLAVKGPELLNK------------YIGQSEENIRNVF-LKARSAA  293 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~--------~-~~~v~~~~l~~~------------~~g~~~~~~~~~~-~~a~~~~  293 (478)
                      -++++|+||+|||++++.++..+..        . ++.+.+.+....            ............+ .......
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   81 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNK   81 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCC
Confidence            3789999999999999999987611        1 223333222211            0111111111211 2223455


Q ss_pred             CeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCC--eEEEeCCCC
Q psy450          294 PCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLD--KSLYVGLYE  371 (478)
Q Consensus       294 p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~--~~i~~~~pp  371 (478)
                      ..+++||.+|.+......  .........+..+   +.. ....++.++.|++. ..... +.+  .+.  ..+.+. |-
T Consensus        82 ~~llilDglDE~~~~~~~--~~~~~~~~~l~~l---~~~-~~~~~~~liit~r~-~~~~~-~~~--~~~~~~~~~l~-~~  150 (166)
T PF05729_consen   82 RVLLILDGLDELEEQDQS--QERQRLLDLLSQL---LPQ-ALPPGVKLIITSRP-RAFPD-LRR--RLKQAQILELE-PF  150 (166)
T ss_pred             ceEEEEechHhcccchhh--hHHHHHHHHHHHH---hhh-ccCCCCeEEEEEcC-ChHHH-HHH--hcCCCcEEEEC-CC
Confidence            679999999999853211  0001111222333   322 11233444444443 22211 222  122  456665 46


Q ss_pred             CHHHHHHHHHHHHhc
Q psy450          372 DRISQLGVLKAVVRK  386 (478)
Q Consensus       372 ~~~~r~~il~~~~~~  386 (478)
                      +.++...+++.+++.
T Consensus       151 ~~~~~~~~~~~~f~~  165 (166)
T PF05729_consen  151 SEEDIKQYLRKYFSN  165 (166)
T ss_pred             CHHHHHHHHHHHhhc
Confidence            888888888887753

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=98.13  E-value=1.2e-06  Score=86.59  Aligned_cols=160  Identities=22%  Similarity=0.230  Sum_probs=81.8

Q ss_pred             cccCcHHHHHHHHHHHHhhhhh-CC-----CCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechh-----hhhhhhc
Q psy450          208 DIGGLSKLKAEILSTFRGVNRT-SG-----LKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPE-----LLNKYIG  276 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~-~~-----~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~-----l~~~~~g  276 (478)
                      +|.|.+.+|..+.-.+-..... ..     ...-|+||.|.||||||.+.+.+++.....+ ++++..     +.....-
T Consensus        25 ~i~g~~~iK~aill~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~pr~v-~~~g~~~s~~gLta~~~~  103 (331)
T PF00493_consen   25 SIYGHEDIKKAILLQLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLAPRSV-YTSGKGSSAAGLTASVSR  103 (331)
T ss_dssp             TTTT-HHHHHHHCCCCTT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-SSEE-EEECCGSTCCCCCEEECC
T ss_pred             cCcCcHHHHHHHHHHHHhccccccccccccccccceeeccchhhhHHHHHHHHHhhCCceE-EECCCCcccCCccceecc
Confidence            5778888887664322222111 00     1145899999999999999998876554433 433322     1100000


Q ss_pred             ---chHHHHH-HHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----------CCCCeEE
Q psy450          277 ---QSEENIR-NVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----------TSQDVFI  341 (478)
Q Consensus       277 ---~~~~~~~-~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~v~v  341 (478)
                         ..+-.+. ..+-.|   ..+|++|||+|.+..             .....+...|+.-.           -+.+.-|
T Consensus       104 d~~~~~~~leaGalvla---d~GiccIDe~dk~~~-------------~~~~~l~eaMEqq~isi~kagi~~~l~ar~sv  167 (331)
T PF00493_consen  104 DPVTGEWVLEAGALVLA---DGGICCIDEFDKMKE-------------DDRDALHEAMEQQTISIAKAGIVTTLNARCSV  167 (331)
T ss_dssp             CGGTSSECEEE-HHHHC---TTSEEEECTTTT--C-------------HHHHHHHHHHHCSCEEECTSSSEEEEE---EE
T ss_pred             ccccceeEEeCCchhcc---cCceeeecccccccc-------------hHHHHHHHHHHcCeeccchhhhcccccchhhh
Confidence               0000000 122233   335999999999863             23455666665311           1335778


Q ss_pred             EEEcCCCC-------------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc
Q psy450          342 LGATNRVD-------------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK  386 (478)
Q Consensus       342 I~ttn~~~-------------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~  386 (478)
                      ++++|...             .+++.+++  |||-.+.+..+++.+.-..+.+..+..
T Consensus       168 laa~NP~~g~~~~~~~~~~ni~l~~~LLS--RFDLif~l~D~~d~~~D~~la~~il~~  223 (331)
T PF00493_consen  168 LAAANPKFGRYDPNKSLSENINLPPPLLS--RFDLIFLLRDKPDEEEDERLAEHILDS  223 (331)
T ss_dssp             EEEE--TT--S-TTS-CGCCT-S-CCCHC--C-SEEECC--TTT-HHHHHHHHHHHTT
T ss_pred             HHHHhhhhhhcchhhhhHHhcccchhhHh--hcCEEEEeccccccccccccceEEEec
Confidence            99998754             37889999  999888766666766666666666644

; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.12  E-value=0.00017  Score=74.26  Aligned_cols=206  Identities=12%  Similarity=0.178  Sum_probs=124.4

Q ss_pred             CCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhccc--cEEEeCC
Q psy450           44 NLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLFL--KTINVLP  111 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf~--~~i~~~~  111 (478)
                      ++++|+|||++.+.+.. ....++..++.+.           ..+..+++.+         +++.+++||.  ..+.+..
T Consensus       194 ~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~-----------~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~  262 (440)
T PRK14088        194 KVDVLLIDDVQFLIGKTGVQTELFHTFNELH-----------DSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEP  262 (440)
T ss_pred             cCCEEEEechhhhcCcHHHHHHHHHHHHHHH-----------HcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCC
Confidence            69999999999997754 2234444455321           2233344444         5667777884  5789999


Q ss_pred             CCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhh
Q psy450          112 LTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       112 P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      ||.+.|.+|++......  .+..+.+.++.|+....| +...++.++..-...+..    .+.+++.+...+++..+...
T Consensus       263 pd~e~r~~IL~~~~~~~--~~~l~~ev~~~Ia~~~~~-~~R~L~g~l~~l~~~~~~----~~~~it~~~a~~~L~~~~~~  335 (440)
T PRK14088        263 PDEETRKKIARKMLEIE--HGELPEEVLNFVAENVDD-NLRRLRGAIIKLLVYKET----TGEEVDLKEAILLLKDFIKP  335 (440)
T ss_pred             CCHHHHHHHHHHHHHhc--CCCCCHHHHHHHHhcccc-CHHHHHHHHHHHHHHHHH----hCCCCCHHHHHHHHHHHhcc
Confidence            99999999999998765  344566667999998775 556666666654444332    35678988888888765311


Q ss_pred             cccCCCCCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          192 YSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       192 ~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ...            ...+..+.+++.+.+..       +..+  --|.|++-..+-..+|.+|-.+-......+..++.
T Consensus       336 ~~~------------~~~i~~~~I~~~V~~~~-------~i~~--~~l~s~~R~~~i~~aR~iamyl~r~~~~~s~~~Ig  394 (440)
T PRK14088        336 NRV------------KAMDPIDELIEIVAKVT-------GVSR--EEILSNSRNVKALLARRIGMYVAKNYLGSSLRTIA  394 (440)
T ss_pred             ccc------------cCCCCHHHHHHHHHHHc-------CCcH--HHHhCCCCCccccHHHHHHHHHHHHHhCCCHHHHH
Confidence            000            01123344444444432       2111  12356666777788888877665444444555554


Q ss_pred             hhhhcchHHHHHHHHHHh
Q psy450          272 NKYIGQSEENIRNVFLKA  289 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a  289 (478)
                      ..+ |.+...+....+..
T Consensus       395 ~~f-gr~hstV~~a~~~i  411 (440)
T PRK14088        395 EKF-NRSHPVVVDSVKKV  411 (440)
T ss_pred             HHh-CCCHHHHHHHHHHH
Confidence            443 55555555544443

>KOG2170|consensus

Probab=98.10  E-value=3e-05  Score=72.94  Aligned_cols=125  Identities=18%  Similarity=0.213  Sum_probs=76.8

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCC-----cEEE-------Eechhhhhhh
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRM-----NFLA-------VKGPELLNKY  274 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~-----~~~~-------v~~~~l~~~~  274 (478)
                      .+.|+.-+++.+...+.....+.... |--+-|||++||||.++++.||+.+-.     +++.       ..-...+..|
T Consensus        83 ~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~~ie~Y  162 (344)
T KOG2170|consen   83 ALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHASKIEDY  162 (344)
T ss_pred             HhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChHHHHHH
Confidence            36788888988888887775554433 666779999999999999999997722     1111       0011112222


Q ss_pred             hcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC---C--CCCCCeEEEEEcCCC
Q psy450          275 IGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG---V--HTSQDVFILGATNRV  348 (478)
Q Consensus       275 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~---~--~~~~~v~vI~ttn~~  348 (478)
                      -.+-   ...+...++.+..++.++||+|+|.+             .++..+--.+|.   .  .+..+-++|.-+|.-
T Consensus       163 k~eL---~~~v~~~v~~C~rslFIFDE~DKmp~-------------gLld~lkpfLdyyp~v~gv~frkaIFIfLSN~g  225 (344)
T KOG2170|consen  163 KEEL---KNRVRGTVQACQRSLFIFDEVDKLPP-------------GLLDVLKPFLDYYPQVSGVDFRKAIFIFLSNAG  225 (344)
T ss_pred             HHHH---HHHHHHHHHhcCCceEEechhhhcCH-------------hHHHHHhhhhccccccccccccceEEEEEcCCc
Confidence            2222   23344455567778999999999973             233333333331   1  123467777777754

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.09  E-value=2.8e-05  Score=66.64  Aligned_cols=25  Identities=28%  Similarity=0.521  Sum_probs=22.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +..++++|+||+||||++.-++..+
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHH
Confidence            4459999999999999999999877

>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=98.07  E-value=0.00014  Score=70.65  Aligned_cols=147  Identities=16%  Similarity=0.163  Sum_probs=76.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH--hCCc---EEEEechh------h----hhhh--------hcchHHHHHHHHHHhH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE--CRMN---FLAVKGPE------L----LNKY--------IGQSEENIRNVFLKAR  290 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~--~~~~---~~~v~~~~------l----~~~~--------~g~~~~~~~~~~~~a~  290 (478)
                      .+-+.|+|++|+|||++|+.+++.  ....   ++.++...      +    ....        ...........+....
T Consensus        19 ~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~L   98 (287)
T PF00931_consen   19 VRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISDPKDIEELQDQLRELL   98 (287)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSCCSSHHHHHHHHHHHH
T ss_pred             eEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhh
Confidence            667899999999999999999977  3332   23333211      1    1111        0112233444444444


Q ss_pred             hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCC
Q psy450          291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLY  370 (478)
Q Consensus       291 ~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~p  370 (478)
                      ...+++|+||+++...               .+..+...+..  ...+..||.||....... ...   .-...+.++. 
T Consensus        99 ~~~~~LlVlDdv~~~~---------------~~~~l~~~~~~--~~~~~kilvTTR~~~v~~-~~~---~~~~~~~l~~-  156 (287)
T PF00931_consen   99 KDKRCLLVLDDVWDEE---------------DLEELREPLPS--FSSGSKILVTTRDRSVAG-SLG---GTDKVIELEP-  156 (287)
T ss_dssp             CCTSEEEEEEEE-SHH---------------HH-------HC--HHSS-EEEEEESCGGGGT-THH---SCEEEEECSS-
T ss_pred             ccccceeeeeeecccc---------------ccccccccccc--cccccccccccccccccc-ccc---cccccccccc-
Confidence            5558999999976542               22222222211  122456777777643211 111   1145677774 


Q ss_pred             CCHHHHHHHHHHHHhcCC----CCCCCCHHHHHHhc
Q psy450          371 EDRISQLGVLKAVVRKFK----LSDDVSLDSLVHHF  402 (478)
Q Consensus       371 p~~~~r~~il~~~~~~~~----~~~~~~~~~la~~~  402 (478)
                      .+.++-.++++.......    ........++++.+
T Consensus       157 L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c  192 (287)
T PF00931_consen  157 LSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKC  192 (287)
T ss_dssp             --HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHT
T ss_pred             cccccccccccccccccccccccccccccccccccc
Confidence            788888888887764433    11122256788887

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.

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

Probab=98.02  E-value=2.6e-05  Score=63.77  Aligned_cols=23  Identities=43%  Similarity=0.901  Sum_probs=20.7

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhC
Q psy450          237 LLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      |.|+||||+|||++++.++..+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~   23 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLL   23 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH
Confidence            57999999999999999988774

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

>PHA00729 NTP-binding motif containing protein

Probab=98.01  E-value=1.8e-05  Score=72.87  Aligned_cols=25  Identities=32%  Similarity=0.496  Sum_probs=23.1

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .+++|+|+||||||++|.++++.++
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4799999999999999999999875

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=98.00  E-value=2.8e-05  Score=71.78  Aligned_cols=77  Identities=21%  Similarity=0.303  Sum_probs=49.7

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh----hc-------------------chHHHHH
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY----IG-------------------QSEENIR  283 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~----~g-------------------~~~~~~~  283 (478)
                      |.+ ..-++++||||+|||+++..++...   +.++++++..++....    ..                   +....+.
T Consensus         8 Gi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~~~~~rl~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~   87 (209)
T TIGR02237         8 GVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEGLSPERFKQIAEDRPERALSNFIVFEVFDFDEQGVAIQ   87 (209)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCCHHHHHHHHHhChHHHhcCEEEEECCCHHHHHHHHH
Confidence            455 5568899999999999999987644   5678888875411000    00                   0011133


Q ss_pred             HHHHHhHhCCCeEEEEcCCccccC
Q psy450          284 NVFLKARSAAPCVVFFDELDSLAP  307 (478)
Q Consensus       284 ~~~~~a~~~~p~il~iDeid~l~~  307 (478)
                      .+...+....+++|+||-+..+..
T Consensus        88 ~l~~~~~~~~~~lvVIDSis~l~~  111 (209)
T TIGR02237        88 KTSKFIDRDSASLVVVDSFTALYR  111 (209)
T ss_pred             HHHHHHhhcCccEEEEeCcHHHhH
Confidence            333334455789999999998863

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

>PLN03210 Resistant to P

Probab=97.99  E-value=8.9e-05  Score=85.60  Aligned_cols=55  Identities=25%  Similarity=0.338  Sum_probs=42.7

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      +...+++++|.+...+++...+....    ...+-+-++|++|+||||+|+++++.+..
T Consensus       179 ~~~~~~~~vG~~~~l~~l~~lL~l~~----~~~~vvgI~G~gGiGKTTLA~~l~~~l~~  233 (1153)
T PLN03210        179 PSNDFEDFVGIEDHIAKMSSLLHLES----EEVRMVGIWGSSGIGKTTIARALFSRLSR  233 (1153)
T ss_pred             cCcccccccchHHHHHHHHHHHcccc----CceEEEEEEcCCCCchHHHHHHHHHHHhh
Confidence            44567889999999998887764221    12556889999999999999999887744

syringae 6; Provisional

>TIGR00763 lon ATP-dependent protease La

Probab=97.97  E-value=5.9e-05  Score=83.22  Aligned_cols=132  Identities=15%  Similarity=0.095  Sum_probs=82.0

Q ss_pred             hhhhHHHHhhhhcCCCeEEEecccccccch---hhHhhhccccccccccccch--hhhccCCCcEEEEe-------eCHh
Q psy450           31 HLNDIVKINLKKYNLDIFKYDEVNYLCNVK---YVYFKLCSFDSVNVKSNETK--DQQCKQQHKKKLVL-------IRKQ   98 (478)
Q Consensus        31 ~~~~if~~~a~~~~p~ilfiDe~d~i~~~r---~~~~~l~~~d~~~~~~~~~~--~~~~~~~~~v~via-------ld~a   98 (478)
                      .+...|. .+...+| |+||||||.+.+..   ..+.+++.+|......-...  ....+ ..++++|+       +|++
T Consensus       403 ~i~~~l~-~~~~~~~-villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d-~s~v~~I~TtN~~~~i~~~  479 (775)
T TIGR00763       403 RIIQGLK-KAKTKNP-LFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFD-LSKVIFIATANSIDTIPRP  479 (775)
T ss_pred             hHHHHHH-HhCcCCC-EEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceec-cCCEEEEEecCCchhCCHH
Confidence            5566777 7766666 89999999998743   35677877874211100000  00111 23566667       9999


Q ss_pred             HHhccccEEEeCCCCHHHHHHHHHHHHhh-----cCC---CCCCChhHHHHHHHh-cCCCCHHHHHHHHHHHHHHHH
Q psy450           99 IQKLFLKTINVLPLTEPERRLLIQYQLDC-----LGG---DYGFDASLVEYLSSV-TSGFERHDLTCLVRLSVKNKM  166 (478)
Q Consensus        99 l~rRf~~~i~~~~P~~~~r~~il~~~~~~-----~~~---~~~~~~~~i~~la~~-t~G~s~~di~~l~~~a~~~a~  166 (478)
                      +++|| ..|+|+.|+.+++.+|++.++..     .+.   .+..+.+.+..+++. |.++...+++..+...+.++.
T Consensus       480 L~~R~-~vi~~~~~~~~e~~~I~~~~l~~~~~~~~~l~~~~~~~~~~~l~~i~~~~~~e~g~R~l~r~i~~~~~~~~  555 (775)
T TIGR00763       480 LLDRM-EVIELSGYTEEEKLEIAKKYLIPKALEDHGLKPDELKITDEALLLLIKYYTREAGVRNLERQIEKICRKAA  555 (775)
T ss_pred             HhCCe-eEEecCCCCHHHHHHHHHHHHHHHHHHHcCCCcceEEECHHHHHHHHHhcChhcCChHHHHHHHHHHHHHH
Confidence            99999 47999999999999999988722     111   123334444666653 345556666665555555443

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.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.93  E-value=1.4e-05  Score=82.33  Aligned_cols=62  Identities=26%  Similarity=0.415  Sum_probs=50.2

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC-CcEEEEe
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR-MNFLAVK  266 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~-~~~~~v~  266 (478)
                      -|+++.|++++++++.+.+.......+.+...++|.||||+|||++++.|++.+. .+++.+.
T Consensus        74 fF~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~~~~Y~~k  136 (644)
T PRK15455         74 AFEEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMERVPIYVLK  136 (644)
T ss_pred             chhcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHhCcceeec
Confidence            3778999999999999988777665555567789999999999999999998773 3555543

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=97.92  E-value=0.00015  Score=71.83  Aligned_cols=136  Identities=14%  Similarity=0.056  Sum_probs=88.2

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhcc------CCCcEEEEe-------eCHhHHhccccEEEeC
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCK------QQHKKKLVL-------IRKQIQKLFLKTINVL  110 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~------~~~~v~via-------ld~al~rRf~~~i~~~  110 (478)
                      .++||||||+|.+.... ...+.+.|+.....  .....+..      .-.++.+|+       +++++++||...+.++
T Consensus       102 ~~~vl~IDEi~~l~~~~-~e~l~~~~e~~~~~--~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~~~~l~  178 (328)
T PRK00080        102 EGDVLFIDEIHRLSPVV-EEILYPAMEDFRLD--IMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGIVQRLE  178 (328)
T ss_pred             cCCEEEEecHhhcchHH-HHHHHHHHHhccee--eeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCeeeecC
Confidence            58999999999986543 12223333321100  00000000      112244444       8999999999999999


Q ss_pred             CCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          111 PLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       111 ~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      .|+.+++.+|++......  ....+.+.++.+++.+.|.- ..+..+++.+...+..+   +...++.++...++..+
T Consensus       179 ~~~~~e~~~il~~~~~~~--~~~~~~~~~~~ia~~~~G~p-R~a~~~l~~~~~~a~~~---~~~~I~~~~v~~~l~~~  250 (328)
T PRK00080        179 FYTVEELEKIVKRSARIL--GVEIDEEGALEIARRSRGTP-RIANRLLRRVRDFAQVK---GDGVITKEIADKALDML  250 (328)
T ss_pred             CCCHHHHHHHHHHHHHHc--CCCcCHHHHHHHHHHcCCCc-hHHHHHHHHHHHHHHHc---CCCCCCHHHHHHHHHHh
Confidence            999999999999998876  44455566699999988755 55666666554444322   34578888888888654

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.91  E-value=0.00061  Score=70.09  Aligned_cols=132  Identities=14%  Similarity=0.231  Sum_probs=88.5

Q ss_pred             cCCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhccc--cEEEeC
Q psy450           43 YNLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLFL--KTINVL  110 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf~--~~i~~~  110 (478)
                      .++++|+|||++.+.++. ....++..++.+.           ..+..+++.+         +++.+++||.  ..+.++
T Consensus       201 ~~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~-----------~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~  269 (445)
T PRK12422        201 RNVDALFIEDIEVFSGKGATQEEFFHTFNSLH-----------TEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLH  269 (445)
T ss_pred             ccCCEEEEcchhhhcCChhhHHHHHHHHHHHH-----------HCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecC
Confidence            468899999999998754 2233333344321           1233455555         7889999996  789999


Q ss_pred             CCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          111 PLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       111 ~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      .|+.++|.+||+......  .+..+.+.++.++....+ +...+...+...+..... ....+.+++.++...++..+.
T Consensus       270 ~pd~e~r~~iL~~k~~~~--~~~l~~evl~~la~~~~~-dir~L~g~l~~l~~~~a~-~~~~~~~i~~~~~~~~l~~~~  344 (445)
T PRK12422        270 PLTKEGLRSFLERKAEAL--SIRIEETALDFLIEALSS-NVKSLLHALTLLAKRVAY-KKLSHQLLYVDDIKALLHDVL  344 (445)
T ss_pred             CCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHH-HHhhCCCCCHHHHHHHHHHhh
Confidence            999999999999999876  445566677889987664 444555555544322211 112456799999988888653

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=97.91  E-value=1.9e-05  Score=81.53  Aligned_cols=188  Identities=20%  Similarity=0.283  Sum_probs=103.3

Q ss_pred             cCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh--CCcEEEEechhhhhh-----hhcchHHH-
Q psy450          210 GGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC--RMNFLAVKGPELLNK-----YIGQSEEN-  281 (478)
Q Consensus       210 ~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~--~~~~~~v~~~~l~~~-----~~g~~~~~-  281 (478)
                      ++.+...+.+..........    .-.+++.|.|||||-.+++++-...  ..+|+.++|..+...     ++|..... 
T Consensus       316 ~~~d~s~a~l~rk~~rv~~~----~~pvll~GEtGtGKe~laraiH~~s~~~gpfvAvNCaAip~~liesELFGy~~Gaf  391 (606)
T COG3284         316 PLLDPSRATLLRKAERVAAT----DLPVLLQGETGTGKEVLARAIHQNSEAAGPFVAVNCAAIPEALIESELFGYVAGAF  391 (606)
T ss_pred             cccCHHHHHHHHHHHHHhhc----CCCeEecCCcchhHHHHHHHHHhcccccCCeEEEEeccchHHhhhHHHhccCcccc
Confidence            34444555444444433222    3359999999999999999997655  568999999655432     22322222 


Q ss_pred             -------HHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC--------CCCCCCeEEEEEcC
Q psy450          282 -------IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG--------VHTSQDVFILGATN  346 (478)
Q Consensus       282 -------~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~--------~~~~~~v~vI~ttn  346 (478)
                             .+..++.|-   ...+|+|||..+.             -.+...|+..+..        ....-++-||++|+
T Consensus       392 Tga~~kG~~g~~~~A~---gGtlFldeIgd~p-------------~~~Qs~LLrVl~e~~v~p~g~~~~~vdirvi~ath  455 (606)
T COG3284         392 TGARRKGYKGKLEQAD---GGTLFLDEIGDMP-------------LALQSRLLRVLQEGVVTPLGGTRIKVDIRVIAATH  455 (606)
T ss_pred             ccchhccccccceecC---CCccHHHHhhhch-------------HHHHHHHHHHHhhCceeccCCcceeEEEEEEeccC
Confidence                   222233332   2489999998886             3455566655432        22122588999998


Q ss_pred             CCCCCCccccCCCCCCeEEEeCC-------CCCHH--HHHHHHHHHHh-cCCCCCCCCHHHHHHhcCCCC--CHHHHHHH
Q psy450          347 RVDLLDPAILRPGRLDKSLYVGL-------YEDRI--SQLGVLKAVVR-KFKLSDDVSLDSLVHHFPSQM--SGADIYSI  414 (478)
Q Consensus       347 ~~~~ld~~l~~~~Rf~~~i~~~~-------pp~~~--~r~~il~~~~~-~~~~~~~~~~~~la~~~~~~~--sg~di~~l  414 (478)
                      ++-   ..+.+.|||-..+|+.+       ||-++  ++...+..+++ +.......+-+.++....-..  +-+++.++
T Consensus       456 ~dl---~~lv~~g~fredLyyrL~~~~i~lP~lr~R~d~~~~l~~~~~~~~~~~~~l~~~~~~~l~~~~WPGNirel~~v  532 (606)
T COG3284         456 RDL---AQLVEQGRFREDLYYRLNAFVITLPPLRERSDRIPLLDRILKRENDWRLQLDDDALARLLAYRWPGNIRELDNV  532 (606)
T ss_pred             cCH---HHHHHcCCchHHHHHHhcCeeeccCchhcccccHHHHHHHHHHccCCCccCCHHHHHHHHhCCCCCcHHHHHHH
Confidence            853   24555677776555444       65443  33333444433 222222233223332221112  33567777


Q ss_pred             HHHHHH
Q psy450          415 CSNAWT  420 (478)
Q Consensus       415 ~~~a~~  420 (478)
                      ++.++.
T Consensus       533 ~~~~~~  538 (606)
T COG3284         533 IERLAA  538 (606)
T ss_pred             HHHHHH
Confidence            776663

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=97.89  E-value=2.8e-05  Score=64.38  Aligned_cols=52  Identities=17%  Similarity=0.254  Sum_probs=41.9

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCC-CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLK-RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ..+.|+.-+.+.+...+.......... |--+.|+|+||||||++++.||+.+
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            357899999999988888776543222 5556799999999999999999985

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

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.89  E-value=0.00015  Score=78.06  Aligned_cols=139  Identities=14%  Similarity=0.182  Sum_probs=90.4

Q ss_pred             hhhhhHHHHhhh--hcCCCeEEEecccccccch--hhHhhhccccccccccccchhhhccCCCcEEEEe----------e
Q psy450           30 HHLNDIVKINLK--KYNLDIFKYDEVNYLCNVK--YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----------I   95 (478)
Q Consensus        30 ~~~~~if~~~a~--~~~p~ilfiDe~d~i~~~r--~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----------l   95 (478)
                      ..+..+|. ...  ....+||+|||||.|....  ++..++.+..              .....|+|||          +
T Consensus       854 evLerLF~-~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~--------------~s~SKLiLIGISNdlDLperL  918 (1164)
T PTZ00112        854 KILDRLFN-QNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPT--------------KINSKLVLIAISNTMDLPERL  918 (1164)
T ss_pred             HHHHHHHh-hhhcccccceEEEeehHhhhCccHHHHHHHHHHHhh--------------ccCCeEEEEEecCchhcchhh
Confidence            35666775 432  2346799999999998754  4444443322              2345688888          7


Q ss_pred             CHhHHhcccc-EEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCC
Q psy450           96 RKQIQKLFLK-TINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKR  174 (478)
Q Consensus        96 d~al~rRf~~-~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~  174 (478)
                      +|.+.+||.. .|.|++++.+++.+||+..+...  .-..+.+.++.+|+.....+ +|++..+.- +..+...  ....
T Consensus       919 dPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A--~gVLdDdAIELIArkVAq~S-GDARKALDI-LRrAgEi--kegs  992 (1164)
T PTZ00112        919 IPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENC--KEIIDHTAIQLCARKVANVS-GDIRKALQI-CRKAFEN--KRGQ  992 (1164)
T ss_pred             hhhhhhccccccccCCCCCHHHHHHHHHHHHHhC--CCCCCHHHHHHHHHhhhhcC-CHHHHHHHH-HHHHHhh--cCCC
Confidence            8888888854 48899999999999999998764  22345555688887655443 566654332 2222211  1344


Q ss_pred             CCCHHHHHHHHHHhh
Q psy450          175 DLQKEDFQQIYDDLQ  189 (478)
Q Consensus       175 ~it~~d~~~a~~~~~  189 (478)
                      .|+.+|+..|...+.
T Consensus       993 kVT~eHVrkAleeiE 1007 (1164)
T PTZ00112        993 KIVPRDITEATNQLF 1007 (1164)
T ss_pred             ccCHHHHHHHHHHHH
Confidence            788899888887663

>TIGR02012 tigrfam_recA protein RecA

Probab=97.88  E-value=0.0001  Score=71.89  Aligned_cols=116  Identities=22%  Similarity=0.299  Sum_probs=66.7

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh----------------hhcchHHHHHHHHHHhH
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK----------------YIGQSEENIRNVFLKAR  290 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~----------------~~g~~~~~~~~~~~~a~  290 (478)
                      |.+ .+-++++||||||||++|..++...   +.++++++..+-...                .....+..+..+....+
T Consensus        51 Glp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~  130 (321)
T TIGR02012        51 GLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVR  130 (321)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhh
Confidence            555 4568899999999999988775544   667777765332211                01112223333333345


Q ss_pred             hCCCeEEEEcCCccccCCCCCCC----CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcC
Q psy450          291 SAAPCVVFFDELDSLAPRRGQED----QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN  346 (478)
Q Consensus       291 ~~~p~il~iDeid~l~~~~~~~~----~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn  346 (478)
                      ...+.+|+||-+..+.++..-.+    ...+...+.+.+++..+.......++.+|.|..
T Consensus       131 ~~~~~lIVIDSv~al~~~~E~e~~~g~~~~~~~aR~m~~~lr~L~~~l~~~~~tvi~tNQ  190 (321)
T TIGR02012       131 SGAVDIIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGALSKSNTTAIFINQ  190 (321)
T ss_pred             ccCCcEEEEcchhhhccchhhcccccccchhHHHHHHHHHHHHHHHHHHhCCCEEEEEec
Confidence            56789999999999986421111    111222344445555554444456677776644

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.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.88  E-value=0.0011  Score=68.43  Aligned_cols=210  Identities=11%  Similarity=0.123  Sum_probs=124.7

Q ss_pred             cCCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhccc--cEEEeC
Q psy450           43 YNLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLFL--KTINVL  110 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf~--~~i~~~  110 (478)
                      ..+++|+|||++.+.++. ....+...++.+.           +.+..+++.+         +++.+.+||.  ..+.+.
T Consensus       205 ~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~-----------~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~  273 (450)
T PRK14087        205 CQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFI-----------ENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQ  273 (450)
T ss_pred             ccCCEEEEeccccccCCHHHHHHHHHHHHHHH-----------HcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccC
Confidence            368899999999998764 3334444444321           2333465554         7888888995  678899


Q ss_pred             CCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhh
Q psy450          111 PLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQS  190 (478)
Q Consensus       111 ~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~  190 (478)
                      .|+.++|.+|++..+...+.....+.+.++.|+....| +...+..++......+...  ....+++.+....++..+..
T Consensus       274 ~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~g-d~R~L~gaL~~l~~~a~~~--~~~~~it~~~v~~~l~~~~~  350 (450)
T PRK14087        274 KLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSD-DVRKIKGSVSRLNFWSQQN--PEEKIITIEIVSDLFRDIPT  350 (450)
T ss_pred             CcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCC-CHHHHHHHHHHHHHHHhcc--cCCCCCCHHHHHHHHhhccc
Confidence            99999999999999976532224566667899988775 5677777777666444321  11367998888888876521


Q ss_pred             hcccCCCCCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          191 RYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ...              ..+..+.+.+.+.+.......         =|.|.+-+-.-..+|.+|-.+-..+...+.+++
T Consensus       351 ~~~--------------~~~t~~~I~~~Va~~~~i~~~---------dl~s~~R~~~i~~~RqiamyL~r~~t~~sl~~I  407 (450)
T PRK14087        351 SKL--------------GILNVKKIKEVVSEKYGISVN---------AIDGKARSKSIVTARHIAMYLTKEILNHTLAQI  407 (450)
T ss_pred             ccc--------------CCCCHHHHHHHHHHHcCCCHH---------HHhCCCCCccccHHHHHHHHHHHHHcCCCHHHH
Confidence            100              113345555555443322211         112333332334566666555444444555555


Q ss_pred             hhhhhcchHHHHHHHHHHh
Q psy450          271 LNKYIGQSEENIRNVFLKA  289 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a  289 (478)
                      ...+-|.....+-...+..
T Consensus       408 G~~FggrdHsTV~~a~~ki  426 (450)
T PRK14087        408 GEEFGGRDHTTVINAERKI  426 (450)
T ss_pred             HHHhCCCChHHHHHHHHHH
Confidence            5544445555544444443

>KOG0478|consensus

Probab=97.87  E-value=4.8e-05  Score=78.73  Aligned_cols=152  Identities=21%  Similarity=0.313  Sum_probs=82.4

Q ss_pred             cccCcHHHHHHHHHHHHhh----hhhCC-CC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHH
Q psy450          208 DIGGLSKLKAEILSTFRGV----NRTSG-LK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEEN  281 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~----~~~~~-~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~  281 (478)
                      +|-|++.+|+-|.-.+-.-    ....| .+ .-+|||+|.||||||.+.+.+++.+..-.+. ++.  .+..+|.+.-.
T Consensus       430 sIye~edvKkglLLqLfGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yT-SGk--GsSavGLTayV  506 (804)
T KOG0478|consen  430 SIYELEDVKKGLLLQLFGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYT-SGK--GSSAVGLTAYV  506 (804)
T ss_pred             hhhcccchhhhHHHHHhcCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcceee-cCC--ccchhcceeeE
Confidence            5678888888765333221    11111 11 3579999999999999999999877544332 220  00011111100


Q ss_pred             -----HHHHHHHh---HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhh------cCCC--CCCCeEEEEEc
Q psy450          282 -----IRNVFLKA---RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEM------DGVH--TSQDVFILGAT  345 (478)
Q Consensus       282 -----~~~~~~~a---~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l------~~~~--~~~~v~vI~tt  345 (478)
                           .+++..+.   ......|-.|||||++....          +.++.+.+.+-      .|+-  -+.+.-|+|++
T Consensus       507 trd~dtkqlVLesGALVLSD~GiCCIDEFDKM~dSt----------rSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaA  576 (804)
T KOG0478|consen  507 TKDPDTRQLVLESGALVLSDNGICCIDEFDKMSDST----------RSVLHEVMEQQTLSIAKAGIIASLNARCSVLAAA  576 (804)
T ss_pred             EecCccceeeeecCcEEEcCCceEEchhhhhhhHHH----------HHHHHHHHHHhhhhHhhcceeeeccccceeeeee
Confidence                 01111111   11233588899999996211          23433333221      1111  13456688898


Q ss_pred             CCCC-------------CCCccccCCCCCCeEEEeCCCCCHH
Q psy450          346 NRVD-------------LLDPAILRPGRLDKSLYVGLYEDRI  374 (478)
Q Consensus       346 n~~~-------------~ld~~l~~~~Rf~~~i~~~~pp~~~  374 (478)
                      |...             .|+|.|++  |||.++-+-.++++.
T Consensus       577 NP~~skynp~k~i~eNI~LpptLLS--RFDLIylllD~~DE~  616 (804)
T KOG0478|consen  577 NPIRSKYNPNKSIIENINLPPTLLS--RFDLIFLLLDKPDER  616 (804)
T ss_pred             ccccccCCCCCchhhccCCChhhhh--hhcEEEEEecCcchh
Confidence            8531             37899999  999776554444543

>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=97.85  E-value=1.5e-05  Score=66.68  Aligned_cols=30  Identities=30%  Similarity=0.707  Sum_probs=26.9

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      |++.|+||+||||+|+.+++.++.+++.++
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~i~~d   31 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPVISMD   31 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEEec
Confidence            789999999999999999999998876554

...

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=97.85  E-value=0.00025  Score=69.56  Aligned_cols=136  Identities=10%  Similarity=0.039  Sum_probs=90.5

Q ss_pred             cCCCeEEEecccccccchhhHhhhccccccccccccchhhhc------cCCCcEEEEe-------eCHhHHhccccEEEe
Q psy450           43 YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQC------KQQHKKKLVL-------IRKQIQKLFLKTINV  109 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~------~~~~~v~via-------ld~al~rRf~~~i~~  109 (478)
                      ..+.||||||++.+.+.. ...+++.|+.....  .....+.      ....++.+|+       +++++++||...+.+
T Consensus        80 ~~~~vl~iDEi~~l~~~~-~e~l~~~~~~~~~~--~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~~~~l  156 (305)
T TIGR00635        80 EEGDVLFIDEIHRLSPAV-EELLYPAMEDFRLD--IVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRL  156 (305)
T ss_pred             ccCCEEEEehHhhhCHHH-HHHhhHHHhhhhee--eeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcceEEEe
Confidence            357899999999987543 23344444422110  0000000      1112355555       899999999999999


Q ss_pred             CCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHH
Q psy450          110 LPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDD  187 (478)
Q Consensus       110 ~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~  187 (478)
                      +.|+.+++.++++......  ....+.+.++.+++.+.|.- ..+..++..+...+...   +...++.+.+..++..
T Consensus       157 ~~l~~~e~~~il~~~~~~~--~~~~~~~al~~ia~~~~G~p-R~~~~ll~~~~~~a~~~---~~~~it~~~v~~~l~~  228 (305)
T TIGR00635       157 EFYTVEELAEIVSRSAGLL--NVEIEPEAALEIARRSRGTP-RIANRLLRRVRDFAQVR---GQKIINRDIALKALEM  228 (305)
T ss_pred             CCCCHHHHHHHHHHHHHHh--CCCcCHHHHHHHHHHhCCCc-chHHHHHHHHHHHHHHc---CCCCcCHHHHHHHHHH
Confidence            9999999999999988766  44555666689999988865 55666777665444322   3456888888888876

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.

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=97.84  E-value=0.00016  Score=65.38  Aligned_cols=31  Identities=39%  Similarity=0.275  Sum_probs=25.5

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      ++++||||||||+++..++...   |.++++++.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~   35 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTL   35 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEEC
Confidence            7899999999999999887654   667777765

A related protein is found in archaea.

>PRK08118 topology modulation protein; Reviewed

Probab=97.83  E-value=4e-05  Score=68.05  Aligned_cols=32  Identities=19%  Similarity=0.449  Sum_probs=29.6

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEec
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKG  267 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~  267 (478)
                      .|+++||||+||||+|+.+++.++.+++.++.
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~   34 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDA   34 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecch
Confidence            48999999999999999999999999888774

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.83  E-value=9.7e-05  Score=69.08  Aligned_cols=38  Identities=32%  Similarity=0.565  Sum_probs=30.7

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEech
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP  268 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~  268 (478)
                      |.+ ..-++++|+||+|||+++..++...   +.++++++..
T Consensus        19 Gi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e   60 (225)
T PRK09361         19 GFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE   60 (225)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            444 4567999999999999999998754   6788888876

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.82  E-value=4.4e-05  Score=70.55  Aligned_cols=23  Identities=26%  Similarity=0.444  Sum_probs=20.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -+-+.||+||||||+.+.+|.-.
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999999744

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

Probab=97.80  E-value=0.00015  Score=70.76  Aligned_cols=116  Identities=21%  Similarity=0.291  Sum_probs=64.8

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh----------------hhcchHHHHHHHHHHhH
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK----------------YIGQSEENIRNVFLKAR  290 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~----------------~~g~~~~~~~~~~~~a~  290 (478)
                      |.+ .+-+.++||||||||++|-.++...   +...++++..+-...                .....+..+..+-...+
T Consensus        51 Glp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~  130 (325)
T cd00983          51 GYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVR  130 (325)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHh
Confidence            555 4457899999999999999876543   667777776331111                01112222222222335


Q ss_pred             hCCCeEEEEcCCccccCCCCCCC----CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcC
Q psy450          291 SAAPCVVFFDELDSLAPRRGQED----QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN  346 (478)
Q Consensus       291 ~~~p~il~iDeid~l~~~~~~~~----~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn  346 (478)
                      ...+.+|+||-+-.+.++..-.+    ...+...+.+.+.+..+.......++.+|.|..
T Consensus       131 s~~~~lIVIDSvaal~~~~E~~~~~~~~~~~~qaR~l~~~Lr~L~~~~~k~~~~vI~tNQ  190 (325)
T cd00983         131 SGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSINKSNTTVIFINQ  190 (325)
T ss_pred             ccCCCEEEEcchHhhcccccccccccccchHHHHHHHHHHHHHHHHHHHhCCCEEEEEEc
Confidence            56789999999999986422111    111122234444444444433455666666543

RecA couples ATP hydrolysis to DNA strand exchange.

>KOG0482|consensus

Probab=97.79  E-value=7.8e-05  Score=74.61  Aligned_cols=162  Identities=19%  Similarity=0.287  Sum_probs=95.3

Q ss_pred             cccCcHHHHHHHHHHHHhh-hhh--CCCC---CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHH
Q psy450          208 DIGGLSKLKAEILSTFRGV-NRT--SGLK---RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEEN  281 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~-~~~--~~~~---~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~  281 (478)
                      +|.|.+++|+.|.-++... -+.  .|.+   .-+|+|.|.||+.||.|.+.+.+.....++....   .+..+|.+...
T Consensus       343 EIyGheDVKKaLLLlLVGgvd~~~~dGMKIRGdINicLmGDPGVAKSQLLkyi~rlapRgvYTTGr---GSSGVGLTAAV  419 (721)
T KOG0482|consen  343 EIYGHEDVKKALLLLLVGGVDKSPGDGMKIRGDINICLMGDPGVAKSQLLKYISRLAPRGVYTTGR---GSSGVGLTAAV  419 (721)
T ss_pred             hhccchHHHHHHHHHhhCCCCCCCCCCceeecceeEEecCCCchhHHHHHHHHHhcCcccceecCC---CCCccccchhh
Confidence            6899999999887665543 222  2333   3479999999999999999998876555443321   12234444444


Q ss_pred             HHHHHHHh--------HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHh------hcCCC--CCCCeEEEEEc
Q psy450          282 IRNVFLKA--------RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAE------MDGVH--TSQDVFILGAT  345 (478)
Q Consensus       282 ~~~~~~~a--------~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~------l~~~~--~~~~v~vI~tt  345 (478)
                      +++-...-        .-....|-+|||+|++....          +..+.+.+.+      -.|+.  -+-+.-|++++
T Consensus       420 mkDpvTgEM~LEGGALVLAD~GICCIDEfDKM~e~D----------RtAIHEVMEQQTISIaKAGI~TtLNAR~sILaAA  489 (721)
T KOG0482|consen  420 MKDPVTGEMVLEGGALVLADGGICCIDEFDKMDESD----------RTAIHEVMEQQTISIAKAGINTTLNARTSILAAA  489 (721)
T ss_pred             hcCCCCCeeEeccceEEEccCceEeehhhhhhhhhh----------hHHHHHHHHhhhhhhhhhccccchhhhHHhhhhc
Confidence            33211100        01123478899999997421          2222222221      11221  13456788888


Q ss_pred             CCCC-------------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          346 NRVD-------------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       346 n~~~-------------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                      |..+             .||.+|++  |||....+..-|+++.-+.+.++..
T Consensus       490 NPayGRYnprrs~e~NI~LPaALLS--RFDll~Li~D~pdrd~D~~LA~HiT  539 (721)
T KOG0482|consen  490 NPAYGRYNPRRSPEQNINLPAALLS--RFDLLWLIQDRPDRDNDLRLAQHIT  539 (721)
T ss_pred             CccccccCcccChhHhcCCcHHHHH--hhhhhhhhccCCcccchHHHHHHhH
Confidence            8642             47899999  9996655544356665555555443

>PRK07261 topology modulation protein; Provisional

Probab=97.78  E-value=4.9e-05  Score=67.80  Aligned_cols=32  Identities=19%  Similarity=0.396  Sum_probs=28.7

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEec
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKG  267 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~  267 (478)
                      .|+++|+||+||||+|+.++..++.+++..+.
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~   33 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDT   33 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCC
Confidence            38999999999999999999999988877764

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.78  E-value=7.9e-05  Score=68.04  Aligned_cols=98  Identities=22%  Similarity=0.336  Sum_probs=53.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh----hhcchHHHHHHHHHHhH---------hCCCeEEE
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK----YIGQSEENIRNVFLKAR---------SAAPCVVF  298 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~----~~g~~~~~~~~~~~~a~---------~~~p~il~  298 (478)
                      +..++.||||||||++++.+...+   +..++.+....-...    ..+.....+...+....         .....+|+
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~~~~~a~Ti~~~l~~~~~~~~~~~~~~~~~~vli   98 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREKTGIEAQTIHSFLYRIPNGDDEGRPELPKKDVLI   98 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHHTS-EEEHHHHTTEECCEECCSSCC-TSTSEEE
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHhhCcchhhHHHHHhcCCcccccccccCCcccEEE
Confidence            347889999999999999987655   566766665332211    11111112222222111         12346999


Q ss_pred             EcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCC
Q psy450          299 FDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNR  347 (478)
Q Consensus       299 iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~  347 (478)
                      |||+..+.             ...+..++.....  ...++++++-.+.
T Consensus        99 VDEasmv~-------------~~~~~~ll~~~~~--~~~klilvGD~~Q  132 (196)
T PF13604_consen   99 VDEASMVD-------------SRQLARLLRLAKK--SGAKLILVGDPNQ  132 (196)
T ss_dssp             ESSGGG-B-------------HHHHHHHHHHS-T---T-EEEEEE-TTS
T ss_pred             EecccccC-------------HHHHHHHHHHHHh--cCCEEEEECCcch
Confidence            99988776             3456666666553  2346777766554

>PRK06893 DNA replication initiation factor; Validated

Probab=97.75  E-value=0.00043  Score=64.87  Aligned_cols=124  Identities=13%  Similarity=0.138  Sum_probs=82.9

Q ss_pred             CCCeEEEecccccccchh-hHhhhccccccccccccchhhhccCCCcEEEEe----------eCHhHHhcc--ccEEEeC
Q psy450           44 NLDIFKYDEVNYLCNVKY-VYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----------IRKQIQKLF--LKTINVL  110 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~-~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----------ld~al~rRf--~~~i~~~  110 (478)
                      +.++|+|||++.+.+.+. ...++..++...           ..+..++|++          .+|.+.+|+  ...+.++
T Consensus        91 ~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~-----------~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~  159 (229)
T PRK06893         91 QQDLVCLDDLQAVIGNEEWELAIFDLFNRIK-----------EQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLN  159 (229)
T ss_pred             cCCEEEEeChhhhcCChHHHHHHHHHHHHHH-----------HcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCC
Confidence            468999999999987652 223444455321           2334566776          458899875  4789999


Q ss_pred             CCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Q psy450          111 PLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIY  185 (478)
Q Consensus       111 ~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~  185 (478)
                      .||.++|.+|++......  .+..+.+.+++|+.+.+| +.+.+..++..-...+. .   .+.++|...+.+++
T Consensus       160 ~pd~e~~~~iL~~~a~~~--~l~l~~~v~~~L~~~~~~-d~r~l~~~l~~l~~~~~-~---~~~~it~~~v~~~L  227 (229)
T PRK06893        160 DLTDEQKIIVLQRNAYQR--GIELSDEVANFLLKRLDR-DMHTLFDALDLLDKASL-Q---AQRKLTIPFVKEIL  227 (229)
T ss_pred             CCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHhccC-CHHHHHHHHHHHHHHHH-h---cCCCCCHHHHHHHh
Confidence            999999999999988765  455667777999998774 44555555554332222 1   34568877665554

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

Probab=97.73  E-value=0.0003  Score=71.40  Aligned_cols=69  Identities=17%  Similarity=0.315  Sum_probs=45.8

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCcccc
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLA  306 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~  306 (478)
                      .++++||.+||||++++.+.+......++++..+........  ......+..+.......+||||++.+-
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~~iy~~~~d~~~~~~~l--~d~~~~~~~~~~~~~~yifLDEIq~v~  107 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRIEL--LDLLRAYIELKEREKSYIFLDEIQNVP  107 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcceEEEEecchhcchhhH--HHHHHHHHHhhccCCceEEEecccCch
Confidence            689999999999999998888876656777766654332221  111122222222244699999999874

>KOG1968|consensus

Probab=97.73  E-value=7.8e-05  Score=81.47  Aligned_cols=161  Identities=23%  Similarity=0.268  Sum_probs=95.8

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhh-----cc--hHHHHHHHH---HH--hHhCCCeEEEEcCCcc
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYI-----GQ--SEENIRNVF---LK--ARSAAPCVVFFDELDS  304 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~-----g~--~~~~~~~~~---~~--a~~~~p~il~iDeid~  304 (478)
                      +++.||||+|||+.+.++|.++|..++..|.++..+.+.     +.  +...+...+   ..  .......||++||+|-
T Consensus       360 ~l~~G~pGigKT~~~h~~~k~~g~~v~E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~devD~  439 (871)
T KOG1968|consen  360 LLLSGPPGIGKTTAAHKAAKELGFKVVEKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILMDEVDG  439 (871)
T ss_pred             HHhcCCCCCCchhhHhhhhhhcccceeecCccccccccHHHhhhhccccccchhhhhcccccccccccceeEEEEecccc
Confidence            689999999999999999999999999999876654422     11  111122222   00  0112224999999999


Q ss_pred             ccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          305 LAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       305 l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                      +....          +..+.++.....    ....-+|+++|........-+.  |-...++|+.| +......-+...+
T Consensus       440 ~~~~d----------Rg~v~~l~~l~~----ks~~Piv~~cndr~~p~sr~~~--~~~~~l~f~kP-~~~~i~~ri~si~  502 (871)
T KOG1968|consen  440 MFGED----------RGGVSKLSSLCK----KSSRPLVCTCNDRNLPKSRALS--RACSDLRFSKP-SSELIRSRIMSIC  502 (871)
T ss_pred             ccchh----------hhhHHHHHHHHH----hccCCeEEEecCCCCccccchh--hhcceeeecCC-cHHHHHhhhhhhh
Confidence            98511          122333332222    2234578888887665443333  54567888884 5555544444333


Q ss_pred             h--cCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHH
Q psy450          385 R--KFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWT  420 (478)
Q Consensus       385 ~--~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~  420 (478)
                      .  .+.+..+ .+++++..+     ++||++++..-..
T Consensus       503 ~se~~ki~~~-~l~~~s~~~-----~~DiR~~i~~lq~  534 (871)
T KOG1968|consen  503 KSEGIKISDD-VLEEISKLS-----GGDIRQIIMQLQF  534 (871)
T ss_pred             cccceecCcH-HHHHHHHhc-----ccCHHHHHHHHhh
Confidence            2  2333333 377777654     6788887665443

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.72  E-value=0.00027  Score=72.76  Aligned_cols=77  Identities=27%  Similarity=0.432  Sum_probs=53.8

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh------hcc--------hHHHHHHHHHHhHhC
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY------IGQ--------SEENIRNVFLKARSA  292 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~------~g~--------~~~~~~~~~~~a~~~  292 (478)
                      |.+ ...++++|+||+|||+++..++...   +.++++++..+-..+.      .|.        .+..+..++......
T Consensus        76 Gi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~  155 (446)
T PRK11823         76 GLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESASQIKLRAERLGLPSDNLYLLAETNLEAILATIEEE  155 (446)
T ss_pred             CccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccHHHHHHHHHHcCCChhcEEEeCCCCHHHHHHHHHhh
Confidence            444 4567899999999999999998765   5678888865433221      111        112345566666667


Q ss_pred             CCeEEEEcCCccccC
Q psy450          293 APCVVFFDELDSLAP  307 (478)
Q Consensus       293 ~p~il~iDeid~l~~  307 (478)
                      .|.+|+||++..+..
T Consensus       156 ~~~lVVIDSIq~l~~  170 (446)
T PRK11823        156 KPDLVVIDSIQTMYS  170 (446)
T ss_pred             CCCEEEEechhhhcc
Confidence            889999999998864

>COG1485 Predicted ATPase [General function prediction only]

Probab=97.69  E-value=0.00015  Score=70.13  Aligned_cols=100  Identities=19%  Similarity=0.280  Sum_probs=57.4

Q ss_pred             CCceEEEeCCCCChHHHHHHHHHHHhCCcE-EEEechhhh-------hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCcc
Q psy450          233 KRSGLLLYGPPGTGKTLIAKAVATECRMNF-LAVKGPELL-------NKYIGQSEENIRNVFLKARSAAPCVVFFDELDS  304 (478)
Q Consensus       233 ~~~~iLl~Gp~GtGKT~la~~la~~~~~~~-~~v~~~~l~-------~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~  304 (478)
                      .++|++|||+-|+|||+|.-...+.+..+- ..+....+.       ....|++ .-+..+-.... ....||+|||++.
T Consensus        64 ~~~GlYl~GgVGrGKT~LMD~Fy~~lp~~~k~R~HFh~FM~~vH~~l~~l~g~~-dpl~~iA~~~~-~~~~vLCfDEF~V  141 (367)
T COG1485          64 PVRGLYLWGGVGRGKTMLMDLFYESLPGERKRRLHFHRFMARVHQRLHTLQGQT-DPLPPIADELA-AETRVLCFDEFEV  141 (367)
T ss_pred             CCceEEEECCCCccHHHHHHHHHhhCCccccccccHHHHHHHHHHHHHHHcCCC-CccHHHHHHHH-hcCCEEEeeeeee
Confidence            489999999999999999999988775432 111111111       1112332 11111211111 1224999999875


Q ss_pred             ccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          305 LAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       305 l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                      =...          ...++..|+..+=    ..+|++++|+|.+
T Consensus       142 tDI~----------DAMiL~rL~~~Lf----~~GV~lvaTSN~~  171 (367)
T COG1485         142 TDIA----------DAMILGRLLEALF----ARGVVLVATSNTA  171 (367)
T ss_pred             cChH----------HHHHHHHHHHHHH----HCCcEEEEeCCCC
Confidence            3311          1245566665542    3478999999974

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.69  E-value=6.1e-05  Score=69.48  Aligned_cols=72  Identities=19%  Similarity=0.244  Sum_probs=41.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechh-hhhh---------hhcchHHHHHHHHHHhH--hCCCeEEEEcC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPE-LLNK---------YIGQSEENIRNVFLKAR--SAAPCVVFFDE  301 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~-l~~~---------~~g~~~~~~~~~~~~a~--~~~p~il~iDe  301 (478)
                      |..+|+||+||+|||++|+.++..  .-++..+... .+..         -...+...+.+.+..+.  ...+.+|+||.
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~~~--~~~~~~d~~~~~l~g~~~~~v~~~d~~~~~~~~~d~l~~~~~~~~~ydtVVIDs   89 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLPGK--TLVLSFDMSSKVLIGDENVDIADHDDMPPIQAMVEFYVMQNIQAVKYDNIVIDN   89 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcCCC--CEEEeccccchhccCCCCCceeecCCCCCHHHHHHHHHHHHhccccCCEEEEec
Confidence            566999999999999999998631  1222222211 0000         01112223333333332  24467999999


Q ss_pred             CccccC
Q psy450          302 LDSLAP  307 (478)
Q Consensus       302 id~l~~  307 (478)
                      ++.+..
T Consensus        90 I~~l~~   95 (220)
T TIGR01618        90 ISALQN   95 (220)
T ss_pred             HHHHHH
Confidence            998754

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.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.68  E-value=0.00016  Score=72.41  Aligned_cols=74  Identities=26%  Similarity=0.413  Sum_probs=51.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh------hcc--------hHHHHHHHHHHhHhCCCeE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY------IGQ--------SEENIRNVFLKARSAAPCV  296 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~------~g~--------~~~~~~~~~~~a~~~~p~i  296 (478)
                      ..-++++|+||+|||+++..++...   +.++++++..+-..+.      .|.        .+..+..++.......|.+
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~~~~~l  161 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAETNLEDILASIEELKPDL  161 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcCHHHHHHHHHHcCCCcccEEEEccCcHHHHHHHHHhcCCcE
Confidence            4557899999999999999998765   3578888764322211      111        1223455666666778999


Q ss_pred             EEEcCCccccC
Q psy450          297 VFFDELDSLAP  307 (478)
Q Consensus       297 l~iDeid~l~~  307 (478)
                      |+||++..+..
T Consensus       162 VVIDSIq~l~~  172 (372)
T cd01121         162 VIIDSIQTVYS  172 (372)
T ss_pred             EEEcchHHhhc
Confidence            99999998864

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.

>KOG2383|consensus

Probab=97.67  E-value=0.0003  Score=68.85  Aligned_cols=159  Identities=16%  Similarity=0.241  Sum_probs=81.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcE--EEEechhhhh-----------hh----hcchHH----HHHHHHHHhHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNF--LAVKGPELLN-----------KY----IGQSEE----NIRNVFLKARSA  292 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~--~~v~~~~l~~-----------~~----~g~~~~----~~~~~~~~a~~~  292 (478)
                      |+|++|||..|||||+|.-.+-..+....  -.+...++..           ..    .|.+..    -+.-+-+... .
T Consensus       114 PkGlYlYG~VGcGKTmLMDlFy~~~~~i~rkqRvHFh~fM~~VH~r~H~~k~~~~~~~~~~a~~~~~Dpl~~vA~eIa-~  192 (467)
T KOG2383|consen  114 PKGLYLYGSVGCGKTMLMDLFYDALPPIWRKQRVHFHGFMLSVHKRMHELKQEQGAEKPGYAKSWEIDPLPVVADEIA-E  192 (467)
T ss_pred             CceEEEecccCcchhHHHHHHhhcCCchhhhhhhhHHHHHHHHHHHHHHHHHhccccCccccccccCCccHHHHHHHh-h
Confidence            89999999999999999998875542200  0011111110           00    000000    0111111111 1


Q ss_pred             CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC-CCCCccccCCCCCCeEEEeCCCC
Q psy450          293 APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV-DLLDPAILRPGRLDKSLYVGLYE  371 (478)
Q Consensus       293 ~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~-~~ld~~l~~~~Rf~~~i~~~~pp  371 (478)
                      .-++|++||+..-.-          ...-+++.|+..+=    ..++++++|+|++ +.|-..     -+++..++|   
T Consensus       193 ea~lLCFDEfQVTDV----------ADAmiL~rLf~~Lf----~~GvVlvATSNR~P~dLYkn-----GlQR~~F~P---  250 (467)
T KOG2383|consen  193 EAILLCFDEFQVTDV----------ADAMILKRLFEHLF----KNGVVLVATSNRAPEDLYKN-----GLQRENFIP---  250 (467)
T ss_pred             hceeeeechhhhhhH----------HHHHHHHHHHHHHH----hCCeEEEEeCCCChHHHhhc-----chhhhhhhh---
Confidence            236999999865421          01234444444331    3478999999984 333221     222233332   


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCC--CCHH-HHHHHHHHHH
Q psy450          372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQ--MSGA-DIYSICSNAW  419 (478)
Q Consensus       372 ~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~--~sg~-di~~l~~~a~  419 (478)
                          -..+|+.+++-+.+...+|+...+.....+  |.+. |...++++--
T Consensus       251 ----fI~~L~~rc~vi~ldS~vDYR~~~~~~~~~~yf~~~~d~~~~l~~~f  297 (467)
T KOG2383|consen  251 ----FIALLEERCKVIQLDSGVDYRRKAKSAGENYYFISETDVETVLKEWF  297 (467)
T ss_pred             ----HHHHHHHhheEEecCCccchhhccCCCCceeEecChhhHHHHHHHHH
Confidence                245677777777788888887433322122  3444 6666655443

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.67  E-value=0.0061  Score=56.57  Aligned_cols=172  Identities=18%  Similarity=0.175  Sum_probs=87.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCC---cEEEEechhh-----hhhh----hcc--------hHHHHHHHHHHh-HhCCC
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRM---NFLAVKGPEL-----LNKY----IGQ--------SEENIRNVFLKA-RSAAP  294 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~---~~~~v~~~~l-----~~~~----~g~--------~~~~~~~~~~~a-~~~~p  294 (478)
                      -+.++|+.|+|||.++|++...++.   ..++++...+     ...+    .+.        .+..-+.+.... +...|
T Consensus        53 ~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~~~g~r~  132 (269)
T COG3267          53 ILAVTGEVGSGKTVLRRALLASLNEDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVKKGKRP  132 (269)
T ss_pred             eEEEEecCCCchhHHHHHHHHhcCCCceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHHHHhCCCC
Confidence            4778999999999999977766632   2334443222     1111    111        111112222222 34556


Q ss_pred             eEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccC------CCCCCeEEEeC
Q psy450          295 CVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILR------PGRLDKSLYVG  368 (478)
Q Consensus       295 ~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~------~~Rf~~~i~~~  368 (478)
                      .++++||++.+....          .+.+..|.+.-.+....-.++.++   .|+ |.+.++.      .-|++..+..+
T Consensus       133 v~l~vdEah~L~~~~----------le~Lrll~nl~~~~~~~l~ivL~G---qp~-L~~~lr~~~l~e~~~R~~ir~~l~  198 (269)
T COG3267         133 VVLMVDEAHDLNDSA----------LEALRLLTNLEEDSSKLLSIVLIG---QPK-LRPRLRLPVLRELEQRIDIRIELP  198 (269)
T ss_pred             eEEeehhHhhhChhH----------HHHHHHHHhhcccccCceeeeecC---Ccc-cchhhchHHHHhhhheEEEEEecC
Confidence            899999999997421          122222222222111112244443   222 2222221      12777666666


Q ss_pred             CCCCHHHHHHHHHHHHhcCCCC----CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Q psy450          369 LYEDRISQLGVLKAVVRKFKLS----DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR  424 (478)
Q Consensus       369 ~pp~~~~r~~il~~~~~~~~~~----~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~  424 (478)
                       |.+.++-...++..++.-..+    ++.....+.... .| .+.-|.++|..|...|..
T Consensus       199 -P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~s-qg-~P~lin~~~~~Al~~a~~  255 (269)
T COG3267         199 -PLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEAS-QG-IPRLINNLATLALDAAYS  255 (269)
T ss_pred             -CcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHh-cc-chHHHHHHHHHHHHHHHH
Confidence             467776667777777654332    333355555554 55 344566666655554443

>PRK04296 thymidine kinase; Provisional

Probab=97.65  E-value=0.00035  Score=63.44  Aligned_cols=70  Identities=23%  Similarity=0.246  Sum_probs=41.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec--h--h----hhhhhhcch-----HHHHHHHHHHh--HhCCCeEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG--P--E----LLNKYIGQS-----EENIRNVFLKA--RSAAPCVV  297 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~--~--~----l~~~~~g~~-----~~~~~~~~~~a--~~~~p~il  297 (478)
                      -.+++||+|+|||+++..++..+   +..++.+..  .  .    +.+. .|..     ......++..+  ....+.+|
T Consensus         4 i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~~~~~~~i~~~-lg~~~~~~~~~~~~~~~~~~~~~~~~~dvv   82 (190)
T PRK04296          4 LEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPAIDDRYGEGKVVSR-IGLSREAIPVSSDTDIFELIEEEGEKIDCV   82 (190)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEeccccccccCCcEecC-CCCcccceEeCChHHHHHHHHhhCCCCCEE
Confidence            36889999999999998888766   556665543  1  1    1111 1110     01122333332  33456799


Q ss_pred             EEcCCcccc
Q psy450          298 FFDELDSLA  306 (478)
Q Consensus       298 ~iDeid~l~  306 (478)
                      +|||++.+.
T Consensus        83 iIDEaq~l~   91 (190)
T PRK04296         83 LIDEAQFLD   91 (190)
T ss_pred             EEEccccCC
Confidence            999997663

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.65  E-value=0.00046  Score=64.65  Aligned_cols=73  Identities=21%  Similarity=0.310  Sum_probs=45.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechh----hhhhh--hc-----------------------c--hH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPE----LLNKY--IG-----------------------Q--SE  279 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~----l~~~~--~g-----------------------~--~~  279 (478)
                      ...+++.|+||||||+++..++...   +.+.++++..+    +....  .|                       .  ..
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~~  103 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTTTEFIKQMMSLGYDINKKLISGKLLYIPVYPLLSGNSEKR  103 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHhCCchHHHhhcCcEEEEEecccccChHHHH
Confidence            4568999999999999976655433   55666666431    11110  00                       0  12


Q ss_pred             HHHHHHHHHhHhCCCeEEEEcCCcccc
Q psy450          280 ENIRNVFLKARSAAPCVVFFDELDSLA  306 (478)
Q Consensus       280 ~~~~~~~~~a~~~~p~il~iDeid~l~  306 (478)
                      ..+..+........|.++++|++-.+.
T Consensus       104 ~~l~~il~~~~~~~~~~lVIDe~t~~l  130 (230)
T PRK08533        104 KFLKKLMNTRRFYEKDVIIIDSLSSLI  130 (230)
T ss_pred             HHHHHHHHHHHhcCCCEEEEECccHHh
Confidence            233444555555678899999988765

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=97.65  E-value=0.0015  Score=65.54  Aligned_cols=81  Identities=21%  Similarity=0.219  Sum_probs=48.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC-cEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM-NFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE  312 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~-~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~  312 (478)
                      ..++++.||+|||||+++.+++....+ .-..++.+.+.....    .   ..+..  -..+.+|+|||+..+.-..   
T Consensus       209 ~~Nli~lGp~GTGKThla~~l~~~~a~~sG~f~T~a~Lf~~L~----~---~~lg~--v~~~DlLI~DEvgylp~~~---  276 (449)
T TIGR02688       209 NYNLIELGPKGTGKSYIYNNLSPYVILISGGTITVAKLFYNIS----T---RQIGL--VGRWDVVAFDEVATLKFAK---  276 (449)
T ss_pred             CCcEEEECCCCCCHHHHHHHHhHHHHHHcCCcCcHHHHHHHHH----H---HHHhh--hccCCEEEEEcCCCCcCCc---
Confidence            457999999999999999998776200 003334444433211    1   12222  2345799999998865322   


Q ss_pred             CCCchhHHHHHHHHHHhhcC
Q psy450          313 DQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       313 ~~~~~~~~~~~~~ll~~l~~  332 (478)
                            .+..+..+...|..
T Consensus       277 ------~~~~v~imK~yMes  290 (449)
T TIGR02688       277 ------PKELIGILKNYMES  290 (449)
T ss_pred             ------hHHHHHHHHHHHHh
Confidence                  13455666666653

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.63  E-value=0.00048  Score=72.63  Aligned_cols=134  Identities=14%  Similarity=0.186  Sum_probs=90.9

Q ss_pred             cCCCeEEEecccccccchhhHhhhccccccccccc---cch-------------hhhccCCCcEEEEe--------eCHh
Q psy450           43 YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSN---ETK-------------DQQCKQQHKKKLVL--------IRKQ   98 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~---~~~-------------~~~~~~~~~v~via--------ld~a   98 (478)
                      ....+|||||++.+-..- .+.+|.-|+.-.....   ...             ..+.  ...+.+|+        ++|+
T Consensus       174 a~gG~L~IdEI~~L~~~~-q~~LL~~Le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~d~rlI~ATt~~p~~L~pa  250 (531)
T TIGR02902       174 AHGGVLFIDEIGELHPVQ-MNKLLKVLEDRKVFLDSAYYNSENPNIPSHIHDIFQNGL--PADFRLIGATTRNPEEIPPA  250 (531)
T ss_pred             cCCcEEEEechhhCCHHH-HHHHHHHHHhCeeeeccccccccCcccccchhhhcccCc--ccceEEEEEecCCcccCChH
Confidence            346899999999986543 4555554442110000   000             0111  12234443        9999


Q ss_pred             HHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCH
Q psy450           99 IQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQK  178 (478)
Q Consensus        99 l~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~  178 (478)
                      +++|+ ..|.|+.++.+++.+|++..+++.+  +..+.+.++.++..+.  +++++.++++.|+..+..+   +...|+.
T Consensus       251 LrsR~-~~I~f~pL~~eei~~Il~~~a~k~~--i~is~~al~~I~~y~~--n~Rel~nll~~Aa~~A~~~---~~~~It~  322 (531)
T TIGR02902       251 LRSRC-VEIFFRPLLDEEIKEIAKNAAEKIG--INLEKHALELIVKYAS--NGREAVNIVQLAAGIALGE---GRKRILA  322 (531)
T ss_pred             Hhhhh-heeeCCCCCHHHHHHHHHHHHHHcC--CCcCHHHHHHHHHhhh--hHHHHHHHHHHHHHHHhhC---CCcEEcH
Confidence            99999 5688999999999999999998874  4445555577776553  8899999999998876543   4467999


Q ss_pred             HHHHHHHHH
Q psy450          179 EDFQQIYDD  187 (478)
Q Consensus       179 ~d~~~a~~~  187 (478)
                      +|+..++..
T Consensus       323 ~dI~~vl~~  331 (531)
T TIGR02902       323 EDIEWVAEN  331 (531)
T ss_pred             HHHHHHhCC
Confidence            999998763

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.

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=97.63  E-value=0.00033  Score=65.74  Aligned_cols=50  Identities=12%  Similarity=0.135  Sum_probs=37.7

Q ss_pred             EEEeCCC-CHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHH
Q psy450          106 TINVLPL-TEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVR  159 (478)
Q Consensus       106 ~i~~~~P-~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~  159 (478)
                      .|.+..| |.++-...|.-+.+.+  ++..+.+  ++|...|.|---++|+-.+.
T Consensus        76 ei~lrnpwdfeevy~~lhdfar~y--~f~~e~e--dylihittgthvaqicwfll  126 (531)
T COG4650          76 EIELRNPWDFEEVYACLHDFARGY--EFQPEKE--DYLIHITTGTHVAQICWFLL  126 (531)
T ss_pred             EEEecCcccHHHHHHHHHHHhhcC--CCCCccc--ceEEEEecCccHHHHHHHHH
Confidence            4666666 8999999999999887  5554433  78888999988888876543

>cd01394 radB RadB

Probab=97.63  E-value=0.00027  Score=65.70  Aligned_cols=37  Identities=38%  Similarity=0.566  Sum_probs=29.1

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      |.+ ..-++++|+||+|||+++..++...   +.++++++.
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~   55 (218)
T cd01394          15 GVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDT   55 (218)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence            444 4558899999999999999998765   567777765

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

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

Probab=97.62  E-value=0.00021  Score=61.50  Aligned_cols=35  Identities=31%  Similarity=0.641  Sum_probs=28.2

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      +++.||||+||||+|+.++..++  ...++...+...
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~--~~~i~~D~~~~~   36 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLG--AVVISQDEIRRR   36 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHST--EEEEEHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHCC--CEEEeHHHHHHH
Confidence            78999999999999999999998  445665555443

...

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

Probab=97.62  E-value=5.6e-05  Score=68.05  Aligned_cols=59  Identities=17%  Similarity=0.236  Sum_probs=37.7

Q ss_pred             ccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc---EEEEechhh
Q psy450          209 IGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN---FLAVKGPEL  270 (478)
Q Consensus       209 i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~---~~~v~~~~l  270 (478)
                      ++|-++..+++...+. .  ..+..++.++++|++|+|||++++.+...+..+   ++.+++...
T Consensus         2 fvgR~~e~~~l~~~l~-~--~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~~~~   63 (185)
T PF13191_consen    2 FVGREEEIERLRDLLD-A--AQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVISINCDDS   63 (185)
T ss_dssp             -TT-HHHHHHHHHTTG-G--TSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEEETT
T ss_pred             CCCHHHHHHHHHHHHH-H--HHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEEecc
Confidence            5788888888888775 2  222236789999999999999999988776433   666666544

>KOG0480|consensus

Probab=97.61  E-value=0.0011  Score=68.40  Aligned_cols=161  Identities=20%  Similarity=0.274  Sum_probs=88.6

Q ss_pred             cccccCcHHHHHHHHHHHHhh-hhhC--CCC---CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchH
Q psy450          206 WEDIGGLSKLKAEILSTFRGV-NRTS--GLK---RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSE  279 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~-~~~~--~~~---~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~  279 (478)
                      +-.|.|.+.+|.-+.-.+-.- ....  |.+   --+++++|.||+|||-+.++.+.-+...++.-..+.   ...|.+.
T Consensus       344 ~PsIyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR~vYtsGkaS---SaAGLTa  420 (764)
T KOG0480|consen  344 FPSIYGHELVKAGILLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPRSVYTSGKAS---SAAGLTA  420 (764)
T ss_pred             CccccchHHHHhhHHHHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCcceEecCccc---ccccceE
Confidence            456789999998775443322 1111  222   347999999999999999999987765544321110   0111111


Q ss_pred             HHHHH-----HHHHh---HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----------CCCCeE
Q psy450          280 ENIRN-----VFLKA---RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----------TSQDVF  340 (478)
Q Consensus       280 ~~~~~-----~~~~a---~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~v~  340 (478)
                      ..+++     ..-.|   .-....|-.|||+|++.-+             -...+...|+.-.           -+.+.-
T Consensus       421 aVvkD~esgdf~iEAGALmLADnGICCIDEFDKMd~~-------------dqvAihEAMEQQtISIaKAGv~aTLnARtS  487 (764)
T KOG0480|consen  421 AVVKDEESGDFTIEAGALMLADNGICCIDEFDKMDVK-------------DQVAIHEAMEQQTISIAKAGVVATLNARTS  487 (764)
T ss_pred             EEEecCCCCceeeecCcEEEccCceEEechhcccChH-------------hHHHHHHHHHhheehheecceEEeecchhh
Confidence            11110     00011   1123358889999999732             1223444443210           123445


Q ss_pred             EEEEcCCCC-------------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          341 ILGATNRVD-------------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       341 vI~ttn~~~-------------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                      |+|++|...             .+++++++  |||..+-+-.-|++..-..|-++.+
T Consensus       488 IlAAANPv~GhYdR~ktl~eNi~msApimS--RFDL~FiLlD~~nE~~D~~ia~hIl  542 (764)
T KOG0480|consen  488 ILAAANPVGGHYDRKKTLRENINMSAPIMS--RFDLFFILLDDCNEVVDYAIARHIL  542 (764)
T ss_pred             hhhhcCCcCCccccccchhhhcCCCchhhh--hhcEEEEEecCCchHHHHHHHHHHH
Confidence            778888652             37889999  9996654322255554445555444

>PRK09354 recA recombinase A; Provisional

Probab=97.60  E-value=0.00033  Score=68.99  Aligned_cols=78  Identities=23%  Similarity=0.305  Sum_probs=49.1

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh----------------hhcchHHHHHHHHHHhH
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK----------------YIGQSEENIRNVFLKAR  290 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~----------------~~g~~~~~~~~~~~~a~  290 (478)
                      |.+ .+-+.++||||||||+++-.++...   +...++++..+-...                .....+..+..+-...+
T Consensus        56 Gip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~  135 (349)
T PRK09354         56 GLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVR  135 (349)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhh
Confidence            555 4567899999999999998876443   667777775431111                01112222222222334


Q ss_pred             hCCCeEEEEcCCccccCC
Q psy450          291 SAAPCVVFFDELDSLAPR  308 (478)
Q Consensus       291 ~~~p~il~iDeid~l~~~  308 (478)
                      ...+.+|+||-+-.+.++
T Consensus       136 s~~~~lIVIDSvaaL~~~  153 (349)
T PRK09354        136 SGAVDLIVVDSVAALVPK  153 (349)
T ss_pred             cCCCCEEEEeChhhhcch
Confidence            567889999999999863

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.59  E-value=0.0012  Score=67.59  Aligned_cols=130  Identities=13%  Similarity=0.205  Sum_probs=86.6

Q ss_pred             hhhhHHHHhhhh----cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe---------eCH
Q psy450           31 HLNDIVKINLKK----YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRK   97 (478)
Q Consensus        31 ~~~~if~~~a~~----~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~   97 (478)
                      .++.+++ .++.    .+..||||||+|.+.... .+.++..++                .+.+++|+         +++
T Consensus        76 ~ir~ii~-~~~~~~~~g~~~vL~IDEi~~l~~~~-q~~LL~~le----------------~~~iilI~att~n~~~~l~~  137 (413)
T PRK13342         76 DLREVIE-EARQRRSAGRRTILFIDEIHRFNKAQ-QDALLPHVE----------------DGTITLIGATTENPSFEVNP  137 (413)
T ss_pred             HHHHHHH-HHHHhhhcCCceEEEEechhhhCHHH-HHHHHHHhh----------------cCcEEEEEeCCCChhhhccH
Confidence            4666776 5532    257899999999876433 344454444                23466665         889


Q ss_pred             hHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCC-CCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCC
Q psy450           98 QIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDY-GFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDL  176 (478)
Q Consensus        98 al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~-~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~i  176 (478)
                      ++++|+ ..+.|+.|+.++...+++..+...+..+ ..+.+.++.++..+.| ....+.+++..++..        ...|
T Consensus       138 aL~SR~-~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~G-d~R~aln~Le~~~~~--------~~~I  207 (413)
T PRK13342        138 ALLSRA-QVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANG-DARRALNLLELAALG--------VDSI  207 (413)
T ss_pred             HHhccc-eeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCC-CHHHHHHHHHHHHHc--------cCCC
Confidence            999999 7899999999999999999886532222 4455556788887644 344444444444322        3468


Q ss_pred             CHHHHHHHHHHh
Q psy450          177 QKEDFQQIYDDL  188 (478)
Q Consensus       177 t~~d~~~a~~~~  188 (478)
                      +.+++..++...
T Consensus       208 t~~~v~~~~~~~  219 (413)
T PRK13342        208 TLELLEEALQKR  219 (413)
T ss_pred             CHHHHHHHHhhh
Confidence            888888777654

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.58  E-value=0.0016  Score=65.54  Aligned_cols=123  Identities=11%  Similarity=0.131  Sum_probs=68.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh-------CCcEEEEechhhhh-------h---------hhcchHHHHHHHHHHhH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC-------RMNFLAVKGPELLN-------K---------YIGQSEENIRNVFLKAR  290 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~-------~~~~~~v~~~~l~~-------~---------~~g~~~~~~~~~~~~a~  290 (478)
                      |..++|+||+|+||||++..+|..+       +..+..+++..+..       .         ........+...+... 
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~-  252 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS-  252 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh-
Confidence            6679999999999999999998765       23444444332210       0         1122333344444443 


Q ss_pred             hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCC-CCeEEEEEcCCCCCCCccccCC--CCCCeEEEe
Q psy450          291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTS-QDVFILGATNRVDLLDPAILRP--GRLDKSLYV  367 (478)
Q Consensus       291 ~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~-~~v~vI~ttn~~~~ld~~l~~~--~Rf~~~i~~  367 (478)
                       ....+|+||.+......           ...+..+...++..... ..++|+.+|.....+...+.+-  -.++..|.-
T Consensus       253 -~~~DlVLIDTaGr~~~~-----------~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~~~~~~~~I~T  320 (388)
T PRK12723        253 -KDFDLVLVDTIGKSPKD-----------FMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFSPFSYKTVIFT  320 (388)
T ss_pred             -CCCCEEEEcCCCCCccC-----------HHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhcCCCCCEEEEE
Confidence             34579999998766421           11234444444433322 3567777777665555444431  124555655


Q ss_pred             CC
Q psy450          368 GL  369 (478)
Q Consensus       368 ~~  369 (478)
                      .+
T Consensus       321 Kl  322 (388)
T PRK12723        321 KL  322 (388)
T ss_pred             ec
Confidence            54

>KOG3347|consensus

Probab=97.58  E-value=0.00016  Score=61.09  Aligned_cols=33  Identities=30%  Similarity=0.707  Sum_probs=29.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      ..+||++|-||||||+++..+|..++.+++.++
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~~~~~i~is   39 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKTGLEYIEIS   39 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHhCCceEehh
Confidence            456999999999999999999999998876654

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.57  E-value=0.0022  Score=65.59  Aligned_cols=72  Identities=24%  Similarity=0.269  Sum_probs=45.6

Q ss_pred             CCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhh-------h--------hhc-----chHHHHHHHHHHh
Q psy450          233 KRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLN-------K--------YIG-----QSEENIRNVFLKA  289 (478)
Q Consensus       233 ~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~-------~--------~~g-----~~~~~~~~~~~~a  289 (478)
                      +|..++++|++|+||||++..+|..+   +.++..+++..+..       .        ..+     .....+...+..+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~  173 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKF  173 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHh
Confidence            37789999999999999999998877   55666666533211       0        011     1122244455555


Q ss_pred             HhCCCeEEEEcCCcccc
Q psy450          290 RSAAPCVVFFDELDSLA  306 (478)
Q Consensus       290 ~~~~p~il~iDeid~l~  306 (478)
                      ...  .+|+||..-.+.
T Consensus       174 ~~~--DvVIIDTAGr~~  188 (437)
T PRK00771        174 KKA--DVIIVDTAGRHA  188 (437)
T ss_pred             hcC--CEEEEECCCccc
Confidence            443  699999865543

>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid []

Probab=97.57  E-value=0.00014  Score=65.64  Aligned_cols=151  Identities=18%  Similarity=0.221  Sum_probs=70.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS  315 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~  315 (478)
                      -++++||+|||||.+|-.+|+.+|.+++..+.-.......-.+.+....-+   + .- .=++|||-..-.+.       
T Consensus         3 v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~Driq~y~~l~v~Sgrp~~~el---~-~~-~RiyL~~r~l~~G~-------   70 (233)
T PF01745_consen    3 VYLIVGPTGTGKTALAIALAQKTGAPVISLDRIQCYPELSVGSGRPTPSEL---K-GT-RRIYLDDRPLSDGI-------   70 (233)
T ss_dssp             EEEEE-STTSSHHHHHHHHHHHH--EEEEE-SGGG-GGGTTTTT---SGGG---T-T--EEEES----GGG-S-------
T ss_pred             EEEEECCCCCChhHHHHHHHHHhCCCEEEecceecccccccccCCCCHHHH---c-cc-ceeeeccccccCCC-------
Confidence            378999999999999999999999999999986665543322222211111   1 11 23778764332211       


Q ss_pred             chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccC---CCCCCeEE-EeCCCCCHHHHHHHHHHHHhcCCCCC
Q psy450          316 SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILR---PGRLDKSL-YVGLYEDRISQLGVLKAVVRKFKLSD  391 (478)
Q Consensus       316 ~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~---~~Rf~~~i-~~~~pp~~~~r~~il~~~~~~~~~~~  391 (478)
                       -...+....|+..++.....+.+++=+-+  .+.+..-..+   ...|...+ .+++ |+++....-.+...+++-.++
T Consensus        71 -i~a~ea~~~Li~~v~~~~~~~~~IlEGGS--ISLl~~m~~~~~w~~~f~w~i~rl~l-~d~~~f~~ra~~Rv~~ML~p~  146 (233)
T PF01745_consen   71 -INAEEAHERLISEVNSYSAHGGLILEGGS--ISLLNCMAQDPYWSLDFRWHIRRLRL-PDEEVFMARAKRRVRQMLRPD  146 (233)
T ss_dssp             ---HHHHHHHHHHHHHTTTTSSEEEEEE----HHHHHHHHH-TTTSSSSEEEEEE------HHHHHHHHHHHHHHHHS--
T ss_pred             -cCHHHHHHHHHHHHHhccccCceEEeCch--HHHHHHHHhcccccCCCeEEEEEEEC-CChHHHHHHHHHHHHHhcCCC
Confidence             11245667777778777663333333332  2222211111   01455444 4555 577666555555554443322


Q ss_pred             C---CCHHHHHHhc
Q psy450          392 D---VSLDSLVHHF  402 (478)
Q Consensus       392 ~---~~~~~la~~~  402 (478)
                      +   .-+++++...
T Consensus       147 ~~~~Sll~EL~~lW  160 (233)
T PF01745_consen  147 SSGPSLLEELVALW  160 (233)
T ss_dssp             SSS--HHHHHHHHH
T ss_pred             CCCCcHHHHHHHHH
Confidence            1   2266666554

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

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

Probab=97.56  E-value=0.0016  Score=64.05  Aligned_cols=134  Identities=16%  Similarity=0.196  Sum_probs=85.9

Q ss_pred             hhhhhHHHHhhhhcC----CCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe---------eC
Q psy450           30 HHLNDIVKINLKKYN----LDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IR   96 (478)
Q Consensus        30 ~~~~~if~~~a~~~~----p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld   96 (478)
                      ..+|.+|+ .|++..    ..|||+|||+.+-+.. .-.||--|                .++.|++||         ++
T Consensus        87 kdlr~i~e-~a~~~~~~gr~tiLflDEIHRfnK~Q-QD~lLp~v----------------E~G~iilIGATTENPsF~ln  148 (436)
T COG2256          87 KDLREIIE-EARKNRLLGRRTILFLDEIHRFNKAQ-QDALLPHV----------------ENGTIILIGATTENPSFELN  148 (436)
T ss_pred             HHHHHHHH-HHHHHHhcCCceEEEEehhhhcChhh-hhhhhhhh----------------cCCeEEEEeccCCCCCeeec
Confidence            46888998 896644    4899999999886544 12233223                367799999         99


Q ss_pred             HhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCC-----CChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcC
Q psy450           97 KQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYG-----FDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGI  171 (478)
Q Consensus        97 ~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~-----~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~  171 (478)
                      +||++|- +++.+..-+.++-.+++++-+...+..+.     .+.+..+.++..++    +|.+..++..-..+...+  
T Consensus       149 ~ALlSR~-~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~----GD~R~aLN~LE~~~~~~~--  221 (436)
T COG2256         149 PALLSRA-RVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSN----GDARRALNLLELAALSAE--  221 (436)
T ss_pred             HHHhhhh-heeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcC----chHHHHHHHHHHHHHhcC--
Confidence            9999998 67888889999999999984433322333     34444477777666    455555544433332211  


Q ss_pred             CCCCCCHHHHHHHHHHh
Q psy450          172 NKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       172 ~~~~it~~d~~~a~~~~  188 (478)
                      ....+..+++...+.+.
T Consensus       222 ~~~~~~~~~l~~~l~~~  238 (436)
T COG2256         222 PDEVLILELLEEILQRR  238 (436)
T ss_pred             CCcccCHHHHHHHHhhh
Confidence            11133455555555544

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.56  E-value=0.00028  Score=67.43  Aligned_cols=94  Identities=22%  Similarity=0.308  Sum_probs=55.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCC----------cEEEEe-chhhhhhhhcc-------------hHHHHHHHHHHhH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRM----------NFLAVK-GPELLNKYIGQ-------------SEENIRNVFLKAR  290 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~----------~~~~v~-~~~l~~~~~g~-------------~~~~~~~~~~~a~  290 (478)
                      .++++.||+|+||||+.++++..+..          .+..++ ..++...+.+-             .......++..++
T Consensus       112 ~~~~i~g~~g~GKttl~~~l~~~~~~~~G~i~~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~v~~~~~k~~~~~~~i~  191 (270)
T TIGR02858       112 LNTLIISPPQCGKTTLLRDLARILSTGISQLGLRGKKVGIVDERSEIAGCVNGVPQHDVGIRTDVLDGCPKAEGMMMLIR  191 (270)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCccCCCCceEEECCEEeecchhHHHHHHHhcccccccccccccccccchHHHHHHHHHH
Confidence            57999999999999999999987732          222222 22332221111             1111334555666


Q ss_pred             hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       291 ~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                      ...|.++++||+..               ...+..++..+.     .+..+|+++..+
T Consensus       192 ~~~P~villDE~~~---------------~e~~~~l~~~~~-----~G~~vI~ttH~~  229 (270)
T TIGR02858       192 SMSPDVIVVDEIGR---------------EEDVEALLEALH-----AGVSIIATAHGR  229 (270)
T ss_pred             hCCCCEEEEeCCCc---------------HHHHHHHHHHHh-----CCCEEEEEechh
Confidence            68899999999521               223444444442     245677777754

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.

>PRK10536 hypothetical protein; Provisional

Probab=97.56  E-value=0.0011  Score=62.24  Aligned_cols=48  Identities=25%  Similarity=0.279  Sum_probs=32.7

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHH
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      ....+..+.+.......+...+..        ...++++||+|||||++|.+++..
T Consensus        50 ~~~~~~~i~p~n~~Q~~~l~al~~--------~~lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         50 DSRDTSPILARNEAQAHYLKAIES--------KQLIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             hhcCCccccCCCHHHHHHHHHHhc--------CCeEEEECCCCCCHHHHHHHHHHH
Confidence            344455566655555555544422        225899999999999999999874

>PRK06762 hypothetical protein; Provisional

Probab=97.56  E-value=0.00036  Score=61.84  Aligned_cols=39  Identities=26%  Similarity=0.314  Sum_probs=31.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      |.-++++|+||+||||+|+.+++.++..++.++...+..
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l~~~~~~i~~D~~r~   40 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERLGRGTLLVSQDVVRR   40 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeEEecHHHHHH
Confidence            345889999999999999999999976677777666554

>KOG1051|consensus

Probab=97.55  E-value=0.00074  Score=73.55  Aligned_cols=162  Identities=20%  Similarity=0.293  Sum_probs=102.0

Q ss_pred             cccccCc-HHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhh--h
Q psy450          206 WEDIGGL-SKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELL--N  272 (478)
Q Consensus       206 ~~~i~g~-~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~--~  272 (478)
                      .+.+.|. ++..+.+.+.+..   +.   .++-+|.|.||+|||.++.-+++..          +..++.++...+.  .
T Consensus       185 ldPvigr~deeirRvi~iL~R---rt---k~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~aGa  258 (898)
T KOG1051|consen  185 LDPVIGRHDEEIRRVIEILSR---KT---KNNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVAGA  258 (898)
T ss_pred             CCCccCCchHHHHHHHHHHhc---cC---CCCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhcccCc
Confidence            4556564 4444444443321   11   3568999999999999999999876          3456666665443  3


Q ss_pred             hhhcchHHHHHHHHHHhH-hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC--
Q psy450          273 KYIGQSEENIRNVFLKAR-SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD--  349 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~-~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~--  349 (478)
                      ++-|+.+..++.+...+. .....|||+||++-+.+....    .+ .....+.| +.+-   ..+.+++|+||..-.  
T Consensus       259 ~~rge~E~rlk~l~k~v~~~~~gvILfigelh~lvg~g~~----~~-~~d~~nlL-kp~L---~rg~l~~IGatT~e~Y~  329 (898)
T KOG1051|consen  259 KRRGEFEERLKELLKEVESGGGGVILFLGELHWLVGSGSN----YG-AIDAANLL-KPLL---ARGGLWCIGATTLETYR  329 (898)
T ss_pred             ccchHHHHHHHHHHHHHhcCCCcEEEEecceeeeecCCCc----ch-HHHHHHhh-HHHH---hcCCeEEEecccHHHHH
Confidence            456778888999998877 445678899999999865422    11 11222222 2221   234488998877432  


Q ss_pred             ---CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc
Q psy450          350 ---LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK  386 (478)
Q Consensus       350 ---~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~  386 (478)
                         .-+|++-+  ||+.. .++. |+.+.-..||...-.+
T Consensus       330 k~iekdPalEr--rw~l~-~v~~-pS~~~~~~iL~~l~~~  365 (898)
T KOG1051|consen  330 KCIEKDPALER--RWQLV-LVPI-PSVENLSLILPGLSER  365 (898)
T ss_pred             HHHhhCcchhh--Cccee-Eecc-Ccccchhhhhhhhhhh
Confidence               24889999  99744 4555 4555555667665544

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.55  E-value=8.6e-05  Score=66.19  Aligned_cols=33  Identities=24%  Similarity=0.461  Sum_probs=29.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      +..|+|+|+||||||++|+.+|+.++.+++..+
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~~~~~d~d   36 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLGYDFIDTD   36 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            567999999999999999999999998887543

>KOG2543|consensus

Probab=97.54  E-value=0.0022  Score=62.68  Aligned_cols=158  Identities=15%  Similarity=0.197  Sum_probs=88.8

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh--------------
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK--------------  273 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~--------------  273 (478)
                      .+.+.+.+...|...+..   .....|.++.|+|-+|||||.+.+.+.+.++.+.+++++-+...-              
T Consensus         7 ~v~~Re~qi~~L~~Llg~---~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ecft~~~lle~IL~~~~~~   83 (438)
T KOG2543|consen    7 NVPCRESQIRRLKSLLGN---NSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVECFTYAILLEKILNKSQLA   83 (438)
T ss_pred             CccchHHHHHHHHHHhCC---CCcccceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHhccHHHHHHHHHHHhccC
Confidence            345566666666654422   122237888999999999999999999999999999988554211              


Q ss_pred             -hhcc----hHHHHHH---HHHH---hHhC-CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEE
Q psy450          274 -YIGQ----SEENIRN---VFLK---ARSA-APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFI  341 (478)
Q Consensus       274 -~~g~----~~~~~~~---~~~~---a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~v  341 (478)
                       ..|.    ...++..   .|.+   +.+. ..-.|++|.+|.+-...          ..++..++...+ +.....+.+
T Consensus        84 d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~----------a~ll~~l~~L~e-l~~~~~i~i  152 (438)
T KOG2543|consen   84 DKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMD----------AILLQCLFRLYE-LLNEPTIVI  152 (438)
T ss_pred             CCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccc----------hHHHHHHHHHHH-HhCCCceEE
Confidence             1111    1122222   2222   1222 34688899999986221          123444443322 223334444


Q ss_pred             EEEcCCCCCCCccccCCCCCC-eEEEeCCCCCHHHHHHHHHH
Q psy450          342 LGATNRVDLLDPAILRPGRLD-KSLYVGLYEDRISQLGVLKA  382 (478)
Q Consensus       342 I~ttn~~~~ld~~l~~~~Rf~-~~i~~~~pp~~~~r~~il~~  382 (478)
                      +.+...++.  .-..+-|-++ ..++||- ++.++-..|+..
T Consensus       153 ils~~~~e~--~y~~n~g~~~i~~l~fP~-Ys~~e~~~Il~~  191 (438)
T KOG2543|consen  153 ILSAPSCEK--QYLINTGTLEIVVLHFPQ-YSVEETQVILSR  191 (438)
T ss_pred             EEeccccHH--HhhcccCCCCceEEecCC-CCHHHHHHHHhc
Confidence            443333221  1222234444 4567776 578887777754

>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=97.54  E-value=6.7e-05  Score=66.55  Aligned_cols=23  Identities=43%  Similarity=0.764  Sum_probs=20.5

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +++|+|+||+||||+++.+.+.+
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHHh
Confidence            48999999999999999999887

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.

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

Probab=97.54  E-value=0.0012  Score=65.95  Aligned_cols=158  Identities=15%  Similarity=0.188  Sum_probs=105.3

Q ss_pred             HHHHHHHHh-----hccCccchhhhhHHHHhhhhcCCCeEEEecccccccch--hhHhhhccccccccccccchhhhccC
Q psy450           14 DILSHLLTN-----YFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK--YVYFKLCSFDSVNVKSNETKDQQCKQ   86 (478)
Q Consensus        14 ~~l~~~~~~-----~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r--~~~~~l~~~d~~~~~~~~~~~~~~~~   86 (478)
                      +++..++.+     ..+.+....++.+++-..+.....|+.+||+|.|....  .++.++...+.              .
T Consensus        88 ~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~--------------~  153 (366)
T COG1474          88 QVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGE--------------N  153 (366)
T ss_pred             HHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccc--------------c
Confidence            455556653     34555566667677623344678999999999999985  66666655552              1


Q ss_pred             CCcEEEEe----------eCHhHHhcc-ccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHH---hcCCCCHH
Q psy450           87 QHKKKLVL----------IRKQIQKLF-LKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSS---VTSGFERH  152 (478)
Q Consensus        87 ~~~v~via----------ld~al~rRf-~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~---~t~G~s~~  152 (478)
                      ..+|.||+          +||-+.++| ...|.|++.+.+|-..|++...+..-.+...+.+.++.+|.   ...| ...
T Consensus       154 ~~~v~vi~i~n~~~~~~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~G-DAR  232 (366)
T COG1474         154 KVKVSIIAVSNDDKFLDYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESG-DAR  232 (366)
T ss_pred             ceeEEEEEEeccHHHHHHhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCc-cHH
Confidence            44567777          788888876 45689999999999999999986521122333344344444   3344 334


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          153 DLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       153 di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      ---.+++.|+..|-.+   ....++.++...|...+.
T Consensus       233 ~aidilr~A~eiAe~~---~~~~v~~~~v~~a~~~~~  266 (366)
T COG1474         233 KAIDILRRAGEIAERE---GSRKVSEDHVREAQEEIE  266 (366)
T ss_pred             HHHHHHHHHHHHHHhh---CCCCcCHHHHHHHHHHhh
Confidence            4455677777766543   678899999998866554

>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=97.54  E-value=0.00028  Score=68.81  Aligned_cols=60  Identities=20%  Similarity=0.380  Sum_probs=50.6

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC-CcEEEEe
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR-MNFLAVK  266 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~-~~~~~v~  266 (478)
                      +++.|+++.+.++...+....++.+...+-++|.||+|+|||++++.+-+.+. .+++.+.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y~~Y~l~  121 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEEYPIYTLK  121 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhheEEEEEec
Confidence            48999999999999999988887777788899999999999999999988773 3444443

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot)

Probab=97.54  E-value=0.00025  Score=64.58  Aligned_cols=122  Identities=16%  Similarity=0.131  Sum_probs=57.3

Q ss_pred             EEEeCCCCChHHHHHHHH-HHH-h--CCcEEEEechhhhhhhhcc----hHH-------------HHHHHHHHhHhCCCe
Q psy450          237 LLLYGPPGTGKTLIAKAV-ATE-C--RMNFLAVKGPELLNKYIGQ----SEE-------------NIRNVFLKARSAAPC  295 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~l-a~~-~--~~~~~~v~~~~l~~~~~g~----~~~-------------~~~~~~~~a~~~~p~  295 (478)
                      .+++|.||+|||+.|-.. ... +  |.+++. +...+--.....    ...             ..............+
T Consensus         3 ~~~~G~pGsGKS~~av~~~i~~~l~~gr~V~t-ni~gL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (193)
T PF05707_consen    3 YLITGKPGSGKSYYAVSYVIIPALKKGRPVYT-NIPGLNIEKIQPVLGYDIPTRLIDLSDPDFEEDWDDPDDWRKLPKGS   81 (193)
T ss_dssp             EEEE--TTSSHHHHHHHHHHH-GGGS---EEE---TTB-S--EEEE--TTT-S-----S--SSSEEGGGHHHHTTSGTT-
T ss_pred             EEEEcCCCCcHhHHHHHHHHHHHHhCCCEEEE-ccCCcchhhhhhhccccccccccccccccchhhhhhhhhhcccCCCc
Confidence            578999999999977554 332 2  555544 433222111100    000             001111111111457


Q ss_pred             EEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCC
Q psy450          296 VVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL  369 (478)
Q Consensus       296 il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~  369 (478)
                      +|+|||++.+.+.+...+..       ....+..+...+ ..+.-|+.+|.+|..+|+.++.  ..+..+.+.-
T Consensus        82 liviDEa~~~~~~r~~~~~~-------~~~~~~~l~~hR-h~g~diiliTQ~~~~id~~ir~--lve~~~~~~k  145 (193)
T PF05707_consen   82 LIVIDEAQNFFPSRSWKGKK-------VPEIIEFLAQHR-HYGWDIILITQSPSQIDKFIRD--LVEYHYHCRK  145 (193)
T ss_dssp             EEEETTGGGTSB---T-T-----------HHHHGGGGCC-CTT-EEEEEES-GGGB-HHHHC--CEEEEEEEEE
T ss_pred             EEEEECChhhcCCCcccccc-------chHHHHHHHHhC-cCCcEEEEEeCCHHHHhHHHHH--HHheEEEEEe
Confidence            99999999999876431111       122223443322 3357788899999999999987  7777776654

Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=97.53  E-value=0.0002  Score=68.95  Aligned_cols=99  Identities=26%  Similarity=0.408  Sum_probs=62.0

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEe-chhhhhh----
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR---MNFLAVK-GPELLNK----  273 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~-~~~l~~~----  273 (478)
                      ...++++++-.....+.+.+.+......    ..++++.||+|+||||+++++...+.   ..++.+. ..++.-.    
T Consensus        99 ~~~sle~l~~~~~~~~~~~~~l~~~v~~----~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~~~~~  174 (270)
T PF00437_consen   99 KPFSLEDLGESGSIPEEIAEFLRSAVRG----RGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLPGPNQ  174 (270)
T ss_dssp             S--CHCCCCHTHHCHHHHHHHHHHCHHT----TEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--SCSSE
T ss_pred             ccccHhhccCchhhHHHHHHHHhhcccc----ceEEEEECCCccccchHHHHHhhhccccccceEEeccccceeecccce
Confidence            4456777777666666666666655332    55799999999999999999998773   3444443 2222111    


Q ss_pred             --hhc-chHHHHHHHHHHhHhCCCeEEEEcCCcc
Q psy450          274 --YIG-QSEENIRNVFLKARSAAPCVVFFDELDS  304 (478)
Q Consensus       274 --~~g-~~~~~~~~~~~~a~~~~p~il~iDeid~  304 (478)
                        ... .......+++..+....|+++++.|+-.
T Consensus       175 ~~~~~~~~~~~~~~~l~~~LR~~pD~iiigEiR~  208 (270)
T PF00437_consen  175 IQIQTRRDEISYEDLLKSALRQDPDVIIIGEIRD  208 (270)
T ss_dssp             EEEEEETTTBSHHHHHHHHTTS--SEEEESCE-S
T ss_pred             EEEEeecCcccHHHHHHHHhcCCCCcccccccCC
Confidence              001 1233466778888889999999999743

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.53  E-value=0.00072  Score=63.61  Aligned_cols=37  Identities=22%  Similarity=0.393  Sum_probs=29.4

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      |.+ +..++++|+||+|||+++..++...   +.++++++.
T Consensus        21 G~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~   61 (234)
T PRK06067         21 GIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITT   61 (234)
T ss_pred             CCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEc
Confidence            555 6678899999999999999997553   667777765

>PHA02624 large T antigen; Provisional

Probab=97.52  E-value=0.00026  Score=73.64  Aligned_cols=122  Identities=21%  Similarity=0.189  Sum_probs=72.6

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCC
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR  309 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~  309 (478)
                      |.+ .+.++|+||||||||+++.+|++.++...+.++++.-.+.       .   -+.-+...  .+.+|||+-.-....
T Consensus       427 giPKk~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVNsPt~ks~-------F---wL~pl~D~--~~~l~dD~t~~~~~~  494 (647)
T PHA02624        427 NVPKRRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPPDKLN-------F---ELGCAIDQ--FMVVFEDVKGQPADN  494 (647)
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEEEeeCCcchhH-------H---Hhhhhhhc--eEEEeeecccccccc
Confidence            444 5679999999999999999999999777777875432111       0   11112222  388899975433211


Q ss_pred             CCCCCCchhHHHHHHHHHHhhcCC-CC------CCC-----eEEEEEcCCCCCCCccccCCCCCCeEEEeCC
Q psy450          310 GQEDQSSGVMDRVVSQLLAEMDGV-HT------SQD-----VFILGATNRVDLLDPAILRPGRLDKSLYVGL  369 (478)
Q Consensus       310 ~~~~~~~~~~~~~~~~ll~~l~~~-~~------~~~-----v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~  369 (478)
                      ..  -..|..-.-+..|-+.+||- .-      ..+     -..|.|||. +.+|..+.-  ||-..+.|..
T Consensus       495 ~~--Lp~G~~~dNl~~lRn~LDG~V~v~ld~KH~n~~q~~~PPlliT~Ne-y~iP~T~~~--Rf~~~~~F~~  561 (647)
T PHA02624        495 KD--LPSGQGMNNLDNLRDYLDGSVPVNLEKKHLNKRSQIFPPGIVTMNE-YLIPQTVKA--RFAKVLDFKP  561 (647)
T ss_pred             cc--CCcccccchhhHHHhhcCCCCccccchhccCchhccCCCeEEeecC-cccchhHHH--HHHHhccccc
Confidence            00  00110011124455666764 11      001     124667776 778889988  9999999974

>PRK14974 cell division protein FtsY; Provisional

Probab=97.52  E-value=0.0017  Score=64.04  Aligned_cols=73  Identities=18%  Similarity=0.232  Sum_probs=45.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhh-------hhh---h---------c-chHHHHHHHHHHhH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELL-------NKY---I---------G-QSEENIRNVFLKAR  290 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~-------~~~---~---------g-~~~~~~~~~~~~a~  290 (478)
                      |.-++|+||+|+||||++..+|..+   +.++..+++..+.       ..+   .         + .....+...+..+.
T Consensus       140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~  219 (336)
T PRK14974        140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAK  219 (336)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHHHHH
Confidence            6678999999999999888888765   4455555543211       000   0         1 11122334444555


Q ss_pred             hCCCeEEEEcCCcccc
Q psy450          291 SAAPCVVFFDELDSLA  306 (478)
Q Consensus       291 ~~~p~il~iDeid~l~  306 (478)
                      .....+|+||....+.
T Consensus       220 ~~~~DvVLIDTaGr~~  235 (336)
T PRK14974        220 ARGIDVVLIDTAGRMH  235 (336)
T ss_pred             hCCCCEEEEECCCccC
Confidence            5556799999976664

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.52  E-value=0.0003  Score=63.86  Aligned_cols=71  Identities=23%  Similarity=0.346  Sum_probs=46.7

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh--------CCcEEEEec-hhhhhhhhcc-------------hHHHHHHHHHHhHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC--------RMNFLAVKG-PELLNKYIGQ-------------SEENIRNVFLKARSA  292 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~--------~~~~~~v~~-~~l~~~~~g~-------------~~~~~~~~~~~a~~~  292 (478)
                      .+.|+.|||||||||+.|-+|..+        +..+..++- +++.....|.             ..-.-..++...+.+
T Consensus       138 lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~dVld~cpk~~gmmmaIrsm  217 (308)
T COG3854         138 LNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDPCPKAEGMMMAIRSM  217 (308)
T ss_pred             eeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchhhhhhhhhhcccchHHHHHHHHHHhc
Confidence            358999999999999999998865        233444443 3333222221             122233455666889


Q ss_pred             CCeEEEEcCCccc
Q psy450          293 APCVVFFDELDSL  305 (478)
Q Consensus       293 ~p~il~iDeid~l  305 (478)
                      .|.|+++|||...
T Consensus       218 ~PEViIvDEIGt~  230 (308)
T COG3854         218 SPEVIIVDEIGTE  230 (308)
T ss_pred             CCcEEEEeccccH
Confidence            9999999998654

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=97.52  E-value=0.00075  Score=61.75  Aligned_cols=69  Identities=17%  Similarity=0.383  Sum_probs=41.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh-----CCcE-------------EEEechhhhhh---hhcchHHHHHHHHHHhHhCC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC-----RMNF-------------LAVKGPELLNK---YIGQSEENIRNVFLKARSAA  293 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~-----~~~~-------------~~v~~~~l~~~---~~g~~~~~~~~~~~~a~~~~  293 (478)
                      .-++|+||+|+||||+++.++...     |.++             ..++..+-...   ........+..+++.+....
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~~~~l~~~G~~v~a~~~~~q~~~l~~~~~~~d~l~~~~s~~~~e~~~~~~iL~~~~~~~  105 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGVNVILAQAGAPVCASSFELPPVKIFTSIRVSDDLRDGISYFYAELRRLKEIVEKAKKGE  105 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHHHHHHcCCEEecCccCcccceEEEeccchhccccccChHHHHHHHHHHHHHhccCCC
Confidence            458899999999999999998533     4322             11111111100   00111234566666665457


Q ss_pred             CeEEEEcCCc
Q psy450          294 PCVVFFDELD  303 (478)
Q Consensus       294 p~il~iDeid  303 (478)
                      |.++++||.-
T Consensus       106 p~llllDEp~  115 (199)
T cd03283         106 PVLFLLDEIF  115 (199)
T ss_pred             CeEEEEeccc
Confidence            8999999953

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.51  E-value=0.00017  Score=65.92  Aligned_cols=67  Identities=22%  Similarity=0.379  Sum_probs=42.9

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCC----cEEEEec-hhhhhh---------hhcchHHHHHHHHHHhHhCCCeEEEEcC
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRM----NFLAVKG-PELLNK---------YIGQSEENIRNVFLKARSAAPCVVFFDE  301 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~----~~~~v~~-~~l~~~---------~~g~~~~~~~~~~~~a~~~~p~il~iDe  301 (478)
                      -+++.||+|+||||++++++..+..    .++.+.. .++...         ..|.....+...+..+....|.++++||
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            3789999999999999999887742    2233221 111100         0122223355566677777899999999


Q ss_pred             C
Q psy450          302 L  302 (478)
Q Consensus       302 i  302 (478)
                      +
T Consensus        83 i   83 (198)
T cd01131          83 M   83 (198)
T ss_pred             C
Confidence            6

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.

>PRK08727 hypothetical protein; Validated

Probab=97.50  E-value=0.002  Score=60.54  Aligned_cols=125  Identities=8%  Similarity=0.082  Sum_probs=81.0

Q ss_pred             CCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhcc--ccEEEeCC
Q psy450           44 NLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLF--LKTINVLP  111 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf--~~~i~~~~  111 (478)
                      +..+|+|||++.+.+.. ....++..++..           ...+..|++.+         ++|++.+||  -..+.++.
T Consensus        93 ~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~-----------~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~  161 (233)
T PRK08727         93 GRSLVALDGLESIAGQREDEVALFDFHNRA-----------RAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPV  161 (233)
T ss_pred             cCCEEEEeCcccccCChHHHHHHHHHHHHH-----------HHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecC
Confidence            56899999999998655 222333333421           12234566666         689999997  56789999


Q ss_pred             CCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHH
Q psy450          112 LTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYD  186 (478)
Q Consensus       112 P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~  186 (478)
                      |+.++|.+|++.+....  .+..+.+.++.|+..++|- ...+.+++......+..    .+.++|...+.+.+.
T Consensus       162 ~~~e~~~~iL~~~a~~~--~l~l~~e~~~~La~~~~rd-~r~~l~~L~~l~~~~~~----~~~~it~~~~~~~l~  229 (233)
T PRK08727        162 LDDVARAAVLRERAQRR--GLALDEAAIDWLLTHGERE-LAGLVALLDRLDRESLA----AKRRVTVPFLRRVLE  229 (233)
T ss_pred             CCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHhCCCC-HHHHHHHHHHHHHHHHH----hCCCCCHHHHHHHHh
Confidence            99999999999987665  4556666779999987732 23333334433322221    234677776665554

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.50  E-value=0.00065  Score=58.81  Aligned_cols=25  Identities=32%  Similarity=0.462  Sum_probs=21.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +..++++||+|||||++.+++|.-.
T Consensus        29 Ge~iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          29 GEFIAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             CceEEEeCCCCccHHHHHHHHHhcc
Confidence            3458999999999999999999854

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.49  E-value=0.00034  Score=66.93  Aligned_cols=93  Identities=16%  Similarity=0.178  Sum_probs=59.6

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEe-chhhhhh------
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR---MNFLAVK-GPELLNK------  273 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~-~~~l~~~------  273 (478)
                      .++++++-.+...+.+.+++...       ...+++.||+|+||||+++++...+.   ..++.+. ..++.-.      
T Consensus        57 ~~l~~lg~~~~~~~~l~~~~~~~-------~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~~~~~q~~  129 (264)
T cd01129          57 LDLEKLGLKPENLEIFRKLLEKP-------HGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQIPGINQVQ  129 (264)
T ss_pred             CCHHHcCCCHHHHHHHHHHHhcC-------CCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecCCCceEEE
Confidence            45777777777776666554322       23489999999999999999977663   2344442 2222110      


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCc
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELD  303 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid  303 (478)
                      ............+..+....|++|+++|+-
T Consensus       130 v~~~~~~~~~~~l~~~lR~~PD~i~vgEiR  159 (264)
T cd01129         130 VNEKAGLTFARGLRAILRQDPDIIMVGEIR  159 (264)
T ss_pred             eCCcCCcCHHHHHHHHhccCCCEEEeccCC
Confidence            001111235667777788899999999974

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>KOG0477|consensus

Probab=97.48  E-value=9.2e-05  Score=75.84  Aligned_cols=152  Identities=20%  Similarity=0.234  Sum_probs=79.4

Q ss_pred             cccCcHHHHHHHHHHHHhh-hhhCCC--C---CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHH
Q psy450          208 DIGGLSKLKAEILSTFRGV-NRTSGL--K---RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEEN  281 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~-~~~~~~--~---~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~  281 (478)
                      .|.|.+.+|..+.-.+-.- ....+.  +   -.++||.|.||||||..++.+++.....++...-   ....+|.+...
T Consensus       450 sIyGh~~VK~AvAlaLfGGv~kn~~~khkvRGDinvLL~GDPGTaKSQFLKY~eK~s~RAV~tTGq---GASavGLTa~v  526 (854)
T KOG0477|consen  450 SIYGHEDVKRAVALALFGGVPKNPGGKHKVRGDINVLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQ---GASAVGLTAYV  526 (854)
T ss_pred             hhhchHHHHHHHHHHHhcCCccCCCCCceeccceeEEEecCCCccHHHHHHHHHhcCcceeEeccC---CccccceeEEE
Confidence            5788888888776444322 111111  1   3469999999999999999999887666554321   01111211111


Q ss_pred             HHH----HH-HHh---HhCCCeEEEEcCCccccCCCCCCCCCchhHHHH---HHHHHHhhcCCCCCCCeEEEEEcCCC--
Q psy450          282 IRN----VF-LKA---RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRV---VSQLLAEMDGVHTSQDVFILGATNRV--  348 (478)
Q Consensus       282 ~~~----~~-~~a---~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~---~~~ll~~l~~~~~~~~v~vI~ttn~~--  348 (478)
                      .+.    -| -.+   .....+|-+|||+|++....-.+-...-..+.+   ...+.+.+     +.+..||+++|..  
T Consensus       527 ~KdPvtrEWTLEaGALVLADkGvClIDEFDKMndqDRtSIHEAMEQQSISISKAGIVtsL-----qArctvIAAanPigG  601 (854)
T KOG0477|consen  527 RKDPVTREWTLEAGALVLADKGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSL-----QARCTVIAAANPIGG  601 (854)
T ss_pred             eeCCccceeeeccCeEEEccCceEEeehhhhhcccccchHHHHHHhcchhhhhhhHHHHH-----HhhhhhheecCCCCC
Confidence            111    00 000   112235888999999974311000000000000   00011111     2346689999873  


Q ss_pred             -C----------CCCccccCCCCCCeEEEeCC
Q psy450          349 -D----------LLDPAILRPGRLDKSLYVGL  369 (478)
Q Consensus       349 -~----------~ld~~l~~~~Rf~~~i~~~~  369 (478)
                       +          .+-..+++  |||....+..
T Consensus       602 RY~~s~tFaqNV~ltePIlS--RFDiLcVvkD  631 (854)
T KOG0477|consen  602 RYNPSLTFAQNVDLTEPILS--RFDILCVVKD  631 (854)
T ss_pred             ccCCccchhhccccccchhh--hcceeeeeec
Confidence             1          35567888  9997766655

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.47  E-value=0.0023  Score=63.68  Aligned_cols=72  Identities=17%  Similarity=0.187  Sum_probs=46.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhh-------hhh---------hcchHHHHHHHHHHhHh-CC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELL-------NKY---------IGQSEENIRNVFLKARS-AA  293 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~-------~~~---------~g~~~~~~~~~~~~a~~-~~  293 (478)
                      ++.++|.||+|+||||++..+|..+   +..+..+++....       ..|         ...+...+...+..+.. ..
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~  320 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEAR  320 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccC
Confidence            5679999999999999999998776   3455555542221       111         12345555666655543 23


Q ss_pred             CeEEEEcCCccc
Q psy450          294 PCVVFFDELDSL  305 (478)
Q Consensus       294 p~il~iDeid~l  305 (478)
                      ..+|+||-....
T Consensus       321 ~DvVLIDTaGRs  332 (436)
T PRK11889        321 VDYILIDTAGKN  332 (436)
T ss_pred             CCEEEEeCcccc
Confidence            579999975543

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

Probab=97.47  E-value=0.00053  Score=64.06  Aligned_cols=115  Identities=16%  Similarity=0.137  Sum_probs=61.4

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---C------CcEEEEechhhh-----hh---hh---------------cc
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---R------MNFLAVKGPELL-----NK---YI---------------GQ  277 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~------~~~~~v~~~~l~-----~~---~~---------------g~  277 (478)
                      |.+ ..-+.|+||||+|||+++..++...   +      ..+++++..+-.     ..   ..               ..
T Consensus        15 G~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~   94 (226)
T cd01393          15 GIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLVQLAVRFGLDPEEVLDNIYVARPY   94 (226)
T ss_pred             CCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHHHHHHHhccchhhhhccEEEEeCC
Confidence            444 4557899999999999999997653   3      566777654310     00   00               01


Q ss_pred             hHHHHHHHHHHh----HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEc
Q psy450          278 SEENIRNVFLKA----RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGAT  345 (478)
Q Consensus       278 ~~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~tt  345 (478)
                      +...+...+...    ....+.+|+||-+..+...............+.+..++..+..+....++.||.+.
T Consensus        95 ~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~l~~~~~~~~~~~~~~~~~l~~~~~~L~~~a~~~~~~vi~tn  166 (226)
T cd01393          95 NGEQQLEIVEELERIMSSGRVDLVVVDSVAALFRKEFIGRGMLAERARLLSQALRKLLRLADKFNVAVVFTN  166 (226)
T ss_pred             CHHHHHHHHHHHHHHhhcCCeeEEEEcCcchhhhhhhcCCchHHHHHHHHHHHHHHHHHHHHHhCcEEEEEE
Confidence            111222233322    24567899999999886432111110111123344444444444344566666554

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PRK13947 shikimate kinase; Provisional

Probab=97.46  E-value=0.00012  Score=65.22  Aligned_cols=31  Identities=39%  Similarity=0.576  Sum_probs=28.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      +|++.|+||||||++++.+|+.++.+++..+
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~d   33 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDTD   33 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCEEECc
Confidence            5999999999999999999999999987654

>PRK03839 putative kinase; Provisional

Probab=97.44  E-value=0.00012  Score=65.80  Aligned_cols=31  Identities=26%  Similarity=0.518  Sum_probs=27.8

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      .|+|.|+||+||||+++.+|+.++.+++.++
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d   32 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLT   32 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence            3899999999999999999999999886654

>PRK00625 shikimate kinase; Provisional

Probab=97.43  E-value=0.00014  Score=64.91  Aligned_cols=31  Identities=32%  Similarity=0.487  Sum_probs=28.6

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      +|+|+|.||+|||++++.+|+.++.+++.++
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~D   32 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDTD   32 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEhh
Confidence            4899999999999999999999999987765

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

Probab=97.41  E-value=0.0025  Score=59.19  Aligned_cols=105  Identities=12%  Similarity=0.187  Sum_probs=70.8

Q ss_pred             CCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhcccc--EEEeCC
Q psy450           44 NLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLFLK--TINVLP  111 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf~~--~i~~~~  111 (478)
                      ...+|+||+++.+.++. ....++..++.+.           ..+..+++.+         ++|.+.+||..  .+.+..
T Consensus        97 ~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~-----------~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~  165 (219)
T PF00308_consen   97 SADLLIIDDIQFLAGKQRTQEELFHLFNRLI-----------ESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQP  165 (219)
T ss_dssp             TSSEEEEETGGGGTTHHHHHHHHHHHHHHHH-----------HTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE--
T ss_pred             cCCEEEEecchhhcCchHHHHHHHHHHHHHH-----------hhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCC
Confidence            67899999999998875 3344455555431           3345565555         78889999865  899999


Q ss_pred             CCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy450          112 LTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSV  162 (478)
Q Consensus       112 P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~  162 (478)
                      ||.+.|.+|++.+....  .+..+.+.++.|+...+ -+...+..++..-.
T Consensus       166 pd~~~r~~il~~~a~~~--~~~l~~~v~~~l~~~~~-~~~r~L~~~l~~l~  213 (219)
T PF00308_consen  166 PDDEDRRRILQKKAKER--GIELPEEVIEYLARRFR-RDVRELEGALNRLD  213 (219)
T ss_dssp             --HHHHHHHHHHHHHHT--T--S-HHHHHHHHHHTT-SSHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHh--CCCCcHHHHHHHHHhhc-CCHHHHHHHHHHHH
Confidence            99999999999999887  44566777789998866 35666666665443

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.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.41  E-value=0.00053  Score=64.45  Aligned_cols=116  Identities=12%  Similarity=0.164  Sum_probs=61.2

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---------CCcEEEEechhhhh-h---------------h-----h--cc
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---------RMNFLAVKGPELLN-K---------------Y-----I--GQ  277 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---------~~~~~~v~~~~l~~-~---------------~-----~--g~  277 (478)
                      |.+ ..-+.|+||||||||+++..++...         +..+++++..+-.. .               .     .  ..
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~   94 (235)
T cd01123          15 GIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQIAERFGLDPEEVLDNIYVARAY   94 (235)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHHHHHhccChHhHhcCEEEEecC
Confidence            444 4557899999999999999997543         25677777543100 0               0     0  00


Q ss_pred             hHHH----HHHHHHHhHhC-CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcC
Q psy450          278 SEEN----IRNVFLKARSA-APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN  346 (478)
Q Consensus       278 ~~~~----~~~~~~~a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn  346 (478)
                      +...    +..+....... .+.+|+||-+..+...............+.+..++..+..+....++.|+.|..
T Consensus        95 ~~~~l~~~l~~l~~~l~~~~~~~liVIDSis~~~~~~~~~~~~~~~r~~~l~~~~~~L~~la~~~~~avl~tn~  168 (235)
T cd01123          95 NSDHQLQLLEELEAILIESSRIKLVIVDSVTALFRAEFDGRGELAERQQHLAKLLRTLKRLADEFNVAVVITNQ  168 (235)
T ss_pred             CHHHHHHHHHHHHHHHhhcCCeeEEEEeCcHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHhCCEEEEecc
Confidence            1111    12222222344 789999999998753110011101112234445555554443445666776643

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.40  E-value=0.0022  Score=62.77  Aligned_cols=38  Identities=16%  Similarity=0.221  Sum_probs=27.7

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---------CCcEEEEech
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---------RMNFLAVKGP  268 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---------~~~~~~v~~~  268 (478)
                      |.+ ..-+.++||||+|||+++..++-..         +...++++..
T Consensus        92 Gi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE  139 (313)
T TIGR02238        92 GIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTE  139 (313)
T ss_pred             CCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcC
Confidence            455 4457799999999999998876422         4567777753

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.

>PRK13695 putative NTPase; Provisional

Probab=97.39  E-value=0.0017  Score=58.11  Aligned_cols=23  Identities=35%  Similarity=0.567  Sum_probs=20.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .++|+|++|+|||++++.++..+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l   24 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELL   24 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999999987765

>PF14516 AAA_35: AAA-like domain

Probab=97.39  E-value=0.0094  Score=59.11  Aligned_cols=162  Identities=15%  Similarity=0.120  Sum_probs=84.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh------------------hc-------------chH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY------------------IG-------------QSE  279 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~------------------~g-------------~~~  279 (478)
                      +..+.+.||..+|||++...+.+.+   |...+++++..+....                  .+             .+.
T Consensus        31 G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~  110 (331)
T PF14516_consen   31 GSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEISRQLKLDEKLDEYWDEEIGSK  110 (331)
T ss_pred             CCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHHHHcCCChhHHHHHHHhcCCh
Confidence            4458999999999999998887655   6777777764432110                  00             011


Q ss_pred             HHHHHHHHHh---HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC---CCCeEEEEEcCCCCCCCc
Q psy450          280 ENIRNVFLKA---RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT---SQDVFILGATNRVDLLDP  353 (478)
Q Consensus       280 ~~~~~~~~~a---~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~---~~~v~vI~ttn~~~~ld~  353 (478)
                      ......|...   ....|-||+|||+|.+....       ......+..+-.+.+.-..   ..++.+|.+...+..+..
T Consensus       111 ~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~-------~~~~dF~~~LR~~~~~~~~~~~~~~L~li~~~~t~~~~~~  183 (331)
T PF14516_consen  111 ISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYP-------QIADDFFGLLRSWYEQRKNNPIWQKLRLILAGSTEDYIIL  183 (331)
T ss_pred             hhHHHHHHHHHHhcCCCCEEEEEechhhhccCc-------chHHHHHHHHHHHHHhcccCcccceEEEEEecCccccccc
Confidence            1222333321   22468899999999998532       1112333333333221111   123333333322222222


Q ss_pred             cc-cCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCC
Q psy450          354 AI-LRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMS  407 (478)
Q Consensus       354 ~l-~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~s  407 (478)
                      .. .+|..+...+.++. -+.++-..+++.+-.  ...... ++.+-..+ +|+.
T Consensus       184 ~~~~SPFNIg~~i~L~~-Ft~~ev~~L~~~~~~--~~~~~~-~~~l~~~t-gGhP  233 (331)
T PF14516_consen  184 DINQSPFNIGQPIELPD-FTPEEVQELAQRYGL--EFSQEQ-LEQLMDWT-GGHP  233 (331)
T ss_pred             CCCCCCcccccceeCCC-CCHHHHHHHHHhhhc--cCCHHH-HHHHHHHH-CCCH
Confidence            22 45545555555553 577777666665532  222222 66666655 6644

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.39  E-value=0.011  Score=59.94  Aligned_cols=72  Identities=13%  Similarity=0.098  Sum_probs=46.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh---------------hh----c-chHHHHHHHHHHhH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK---------------YI----G-QSEENIRNVFLKAR  290 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~---------------~~----g-~~~~~~~~~~~~a~  290 (478)
                      |.-++|+|++|+||||++..+|..+   |..+..+++..+...               +.    + .........+..++
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~  179 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFK  179 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHH
Confidence            5678999999999999999998776   666666666332100               00    0 11222334555565


Q ss_pred             hCCCeEEEEcCCccc
Q psy450          291 SAAPCVVFFDELDSL  305 (478)
Q Consensus       291 ~~~p~il~iDeid~l  305 (478)
                      .....+|+||=...+
T Consensus       180 ~~~~DvViIDTaGr~  194 (429)
T TIGR01425       180 KENFDIIIVDTSGRH  194 (429)
T ss_pred             hCCCCEEEEECCCCC
Confidence            556679999975443

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.

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

Probab=97.39  E-value=0.0023  Score=60.49  Aligned_cols=27  Identities=26%  Similarity=0.411  Sum_probs=23.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      +..++|.||+|+|||++++.+++....
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~   42 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITK   42 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcccc
Confidence            455999999999999999999987754

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.

>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=97.39  E-value=0.00017  Score=62.87  Aligned_cols=31  Identities=26%  Similarity=0.516  Sum_probs=27.8

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      +|+++|+||+|||++++.++..++.+++..+
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l~~~~~~~d   31 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKALGLPFVDLD   31 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHhCCCEEEch
Confidence            3899999999999999999999999887554

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.

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=97.38  E-value=0.0029  Score=58.48  Aligned_cols=133  Identities=11%  Similarity=0.014  Sum_probs=89.5

Q ss_pred             CceEEEeCCCC-ChHHHHHHHHHHHhCC---------cEEEEechhhhhh-hhcchHHHHHHHHHHhH----hCCCeEEE
Q psy450          234 RSGLLLYGPPG-TGKTLIAKAVATECRM---------NFLAVKGPELLNK-YIGQSEENIRNVFLKAR----SAAPCVVF  298 (478)
Q Consensus       234 ~~~iLl~Gp~G-tGKT~la~~la~~~~~---------~~~~v~~~~l~~~-~~g~~~~~~~~~~~~a~----~~~p~il~  298 (478)
                      .+.+||.|..+ +||..++.-+++.+..         .++.+....-... ...-....+|++...+.    .+..-|++
T Consensus        15 shAYLfeG~n~~~~~~~~~~f~~~~l~~~~i~~~~HPD~~~I~pe~~~~~~~~~I~IdqIReL~~~l~~~p~~g~~KViI   94 (263)
T PRK06581         15 YNSWLIEAENIEQALKDLEKFIYIKLFKNSIPLENNPDYHFIARETSATSNAKNISIEQIRKLQDFLSKTSAISGYKVAI   94 (263)
T ss_pred             hheeeEeCCChhhHHHHHHHHHHHHHhccCcccCCCCCEEEEeccccccccCCcccHHHHHHHHHHHhhCcccCCcEEEE
Confidence            66799999998 9999999888877632         2444432110000 00113445565555442    33456999


Q ss_pred             EcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHH
Q psy450          299 FDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLG  378 (478)
Q Consensus       299 iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~  378 (478)
                      |+++|.+.             ....+.||+.++.  +..++++|.+|+.++.+.|.+++  |+ ..+.++. |....-.+
T Consensus        95 I~~ae~mt-------------~~AANALLKtLEE--PP~~t~fILit~~~~~LLpTIrS--RC-q~i~~~~-p~~~~~~e  155 (263)
T PRK06581         95 IYSAELMN-------------LNAANSCLKILED--APKNSYIFLITSRAASIISTIRS--RC-FKINVRS-SILHAYNE  155 (263)
T ss_pred             EechHHhC-------------HHHHHHHHHhhcC--CCCCeEEEEEeCChhhCchhHhh--ce-EEEeCCC-CCHHHHHH
Confidence            99999997             4678999999995  55677888888889999999999  98 5677876 45554445


Q ss_pred             HHHHHHh
Q psy450          379 VLKAVVR  385 (478)
Q Consensus       379 il~~~~~  385 (478)
                      ++...+.
T Consensus       156 ~~~~~~~  162 (263)
T PRK06581        156 LYSQFIQ  162 (263)
T ss_pred             HHHHhcc
Confidence            5544443

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.38  E-value=0.0013  Score=55.54  Aligned_cols=23  Identities=43%  Similarity=0.534  Sum_probs=20.1

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +++++||+|+|||+++-.++..+
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~   24 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILEL   24 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHH
Confidence            58999999999999888887665

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=97.37  E-value=0.0013  Score=64.93  Aligned_cols=151  Identities=25%  Similarity=0.406  Sum_probs=91.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC--CcEEEEechhhhhhh------hc--------chHHHHHHHHHHhHhCCCeEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR--MNFLAVKGPELLNKY------IG--------QSEENIRNVFLKARSAAPCVV  297 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~--~~~~~v~~~~l~~~~------~g--------~~~~~~~~~~~~a~~~~p~il  297 (478)
                      ..-+|+-|.||.|||||+-.++..+.  .+++|+++.+-..+.      .+        ..+.++.++...+....|.++
T Consensus        93 Gs~iLIgGdPGIGKSTLLLQva~~lA~~~~vLYVsGEES~~QiklRA~RL~~~~~~l~l~aEt~~e~I~~~l~~~~p~lv  172 (456)
T COG1066          93 GSVILIGGDPGIGKSTLLLQVAARLAKRGKVLYVSGEESLQQIKLRADRLGLPTNNLYLLAETNLEDIIAELEQEKPDLV  172 (456)
T ss_pred             ccEEEEccCCCCCHHHHHHHHHHHHHhcCcEEEEeCCcCHHHHHHHHHHhCCCccceEEehhcCHHHHHHHHHhcCCCEE
Confidence            44577889999999998888877662  379999875543321      11        245567888888888999999


Q ss_pred             EEcCCccccCCCCCCC-CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC-CCCccccCCCCCCeEEEeCCCCCHHH
Q psy450          298 FFDELDSLAPRRGQED-QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD-LLDPAILRPGRLDKSLYVGLYEDRIS  375 (478)
Q Consensus       298 ~iDeid~l~~~~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~-~ld~~l~~~~Rf~~~i~~~~pp~~~~  375 (478)
                      +||-|+.+....-++. .+-...++....|+..-..  .+-.+++++=-..-. .-.|.++. .-.|..+||.-  ++..
T Consensus       173 VIDSIQT~~s~~~~SapGsVsQVRe~t~~L~~~AK~--~~i~~fiVGHVTKeG~IAGPrvLE-HmVDtVlyFEG--d~~~  247 (456)
T COG1066         173 VIDSIQTLYSEEITSAPGSVSQVREVAAELMRLAKT--KNIAIFIVGHVTKEGAIAGPRVLE-HMVDTVLYFEG--DRHS  247 (456)
T ss_pred             EEeccceeecccccCCCCcHHHHHHHHHHHHHHHHH--cCCeEEEEEEEcccccccCchhee-eeeeEEEEEec--cCCC
Confidence            9999999985542221 1222334555555554331  122344444333222 22445554 24566777763  5556


Q ss_pred             HHHHHHHHHhcCCC
Q psy450          376 QLGVLKAVVRKFKL  389 (478)
Q Consensus       376 r~~il~~~~~~~~~  389 (478)
                      ..+|++..-..++.
T Consensus       248 ~~RiLR~vKNRFG~  261 (456)
T COG1066         248 RYRILRSVKNRFGA  261 (456)
T ss_pred             ceeeeehhcccCCc
Confidence            66677665544443

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

Probab=97.37  E-value=0.001  Score=73.00  Aligned_cols=145  Identities=12%  Similarity=0.113  Sum_probs=91.4

Q ss_pred             hhhhcCCCeEEEecccccccch---hhHhhhccccccccccccch--hhhccCCCcEEEEe------eCHhHHhccccEE
Q psy450           39 NLKKYNLDIFKYDEVNYLCNVK---YVYFKLCSFDSVNVKSNETK--DQQCKQQHKKKLVL------IRKQIQKLFLKTI  107 (478)
Q Consensus        39 ~a~~~~p~ilfiDe~d~i~~~r---~~~~~l~~~d~~~~~~~~~~--~~~~~~~~~v~via------ld~al~rRf~~~i  107 (478)
                      .+...+| |+||||+|.+.+..   ..+.++.-+|.-.+..-...  ... -.-.+|++||      ++||++.|| ..|
T Consensus       412 ~~~~~~~-villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~-~dls~v~~i~TaN~~~i~~aLl~R~-~ii  488 (784)
T PRK10787        412 KVGVKNP-LFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVD-YDLSDVMFVATSNSMNIPAPLLDRM-EVI  488 (784)
T ss_pred             hcCCCCC-EEEEEChhhcccccCCCHHHHHHHHhccccEEEEeccccccc-ccCCceEEEEcCCCCCCCHHHhcce-eee
Confidence            4443444 89999999998753   25677777773211100000  011 1235688888      999999999 579


Q ss_pred             EeCCCCHHHHHHHHHHHHhh--c------CCCCCCChhHHHHHHHh-cCCCCHHHHHHHHHHHHHHHHHhh----cCCCC
Q psy450          108 NVLPLTEPERRLLIQYQLDC--L------GGDYGFDASLVEYLSSV-TSGFERHDLTCLVRLSVKNKMLKQ----GINKR  174 (478)
Q Consensus       108 ~~~~P~~~~r~~il~~~~~~--~------~~~~~~~~~~i~~la~~-t~G~s~~di~~l~~~a~~~a~~~~----~~~~~  174 (478)
                      .+..++.++..+|.+.++..  .      +..+..+.+.++.++.. +..+....++..+...+...+.+.    .....
T Consensus       489 ~~~~~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~ai~~ii~~yt~e~GaR~LeR~I~~i~r~~l~~~~~~~~~~~v  568 (784)
T PRK10787        489 RLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREAGVRSLEREISKLCRKAVKQLLLDKSLKHI  568 (784)
T ss_pred             ecCCCCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHHHHHHHHHhCCcccCCcHHHHHHHHHHHHHHHHHHhcCCCcee
Confidence            99999999999999999942  1      11234455555677653 445666677777776666554331    22335


Q ss_pred             CCCHHHHHHHHH
Q psy450          175 DLQKEDFQQIYD  186 (478)
Q Consensus       175 ~it~~d~~~a~~  186 (478)
                      .++.+++...+.
T Consensus       569 ~v~~~~~~~~lg  580 (784)
T PRK10787        569 EINGDNLHDYLG  580 (784)
T ss_pred             eecHHHHHHHhC
Confidence            677777665554

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=97.35  E-value=0.00062  Score=68.04  Aligned_cols=69  Identities=22%  Similarity=0.346  Sum_probs=46.3

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC-----CcEEEEec-hhhh-----------hhhhcchHHHHHHHHHHhHhCCCeEE
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR-----MNFLAVKG-PELL-----------NKYIGQSEENIRNVFLKARSAAPCVV  297 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~-----~~~~~v~~-~~l~-----------~~~~g~~~~~~~~~~~~a~~~~p~il  297 (478)
                      ..++++||+|+||||+++++.....     .+++.+.- .++.           ...+|.........+..+....|.+|
T Consensus       150 GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~~~~~~~~~~~q~evg~~~~~~~~~l~~aLR~~PD~I  229 (372)
T TIGR02525       150 GLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYILGSPDDLLPPAQSQIGRDVDSFANGIRLALRRAPKII  229 (372)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhccCCCceeecccccccCCCccCHHHHHHHhhccCCCEE
Confidence            3589999999999999999987762     34555432 1221           01112222245567777788899999


Q ss_pred             EEcCCc
Q psy450          298 FFDELD  303 (478)
Q Consensus       298 ~iDeid  303 (478)
                      ++.|+-
T Consensus       230 ~vGEiR  235 (372)
T TIGR02525       230 GVGEIR  235 (372)
T ss_pred             eeCCCC
Confidence            999974

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.35  E-value=0.00066  Score=60.03  Aligned_cols=70  Identities=21%  Similarity=0.210  Sum_probs=42.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC--cEEEEechhh--------hhhhhc----ch-HHHHHHHHHHhHhCCCeEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM--NFLAVKGPEL--------LNKYIG----QS-EENIRNVFLKARSAAPCVVF  298 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~--~~~~v~~~~l--------~~~~~g----~~-~~~~~~~~~~a~~~~p~il~  298 (478)
                      ...+.|.||+|+|||++++.++.....  --+.++..++        .....+    -+ ....+-.+..+....|.+++
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G~~qrl~laral~~~p~ill  105 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVSFASPRDARRAGIAMVYQLSVGERQMVEIARALARNARLLI  105 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEECCcCCHHHHHhcCeEEEEecCHHHHHHHHHHHHHhcCCCEEE
Confidence            445889999999999999999876521  1122222111        111111    11 12233455666778899999


Q ss_pred             EcCCc
Q psy450          299 FDELD  303 (478)
Q Consensus       299 iDeid  303 (478)
                      +||--
T Consensus       106 lDEP~  110 (163)
T cd03216         106 LDEPT  110 (163)
T ss_pred             EECCC
Confidence            99954

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.

>PRK13949 shikimate kinase; Provisional

Probab=97.34  E-value=0.00019  Score=63.82  Aligned_cols=31  Identities=35%  Similarity=0.597  Sum_probs=28.7

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      .|+|.|+||+|||++++.+|+.++.+++..+
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~~~~id~D   33 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELGLSFIDLD   33 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCeeccc
Confidence            5999999999999999999999999887765

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.32  E-value=0.0012  Score=58.63  Aligned_cols=70  Identities=17%  Similarity=0.198  Sum_probs=45.6

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh-----------------hhcchHHHHHHHHHHhHhCCCeEEEE
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK-----------------YIGQSEENIRNVFLKARSAAPCVVFF  299 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~-----------------~~g~~~~~~~~~~~~a~~~~p~il~i  299 (478)
                      +|+.|++|+|||++|..++...+.+.+++....-...                 ...+....+.+.+....  .+.+++|
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~at~~~~d~em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~--~~~~VLI   79 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAELGGPVTYIATAEAFDDEMAERIARHRKRRPAHWRTIETPRDLVSALKELD--PGDVVLI   79 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCeEEEEccCcCCHHHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcC--CCCEEEE
Confidence            6899999999999999999887778877764322111                 01112223344442222  4569999


Q ss_pred             cCCccccCC
Q psy450          300 DELDSLAPR  308 (478)
Q Consensus       300 Deid~l~~~  308 (478)
                      |-+..+...
T Consensus        80 Dclt~~~~n   88 (169)
T cd00544          80 DCLTLWVTN   88 (169)
T ss_pred             EcHhHHHHH
Confidence            999887644

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=97.32  E-value=0.0015  Score=61.05  Aligned_cols=107  Identities=25%  Similarity=0.298  Sum_probs=60.7

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEechhhhhh--------------h-----------------
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKGPELLNK--------------Y-----------------  274 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~~~l~~~--------------~-----------------  274 (478)
                      |.+ +..+|+.||||+|||+++..++...    |.++++++..+-...              +                 
T Consensus        15 Gip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~~~l~~~~~s~g~d~~~~~~~g~l~~~d~~~~~~~   94 (226)
T PF06745_consen   15 GIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPPEELIENMKSFGWDLEEYEDSGKLKIIDAFPERIG   94 (226)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-HHHHHHHHHTTTS-HHHHHHTTSEEEEESSGGGST
T ss_pred             CCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCHHHHHHHHHHcCCcHHHHhhcCCEEEEeccccccc
Confidence            444 5678999999999999998876433    788888775221110              0                 


Q ss_pred             --hcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcC
Q psy450          275 --IGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN  346 (478)
Q Consensus       275 --~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn  346 (478)
                        ..........+.......++.+++||.+..+...     ......+..+..+...+.    ..++.++.+..
T Consensus        95 ~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls~l~~~-----~~~~~~r~~l~~l~~~l~----~~~~t~llt~~  159 (226)
T PF06745_consen   95 WSPNDLEELLSKIREAIEELKPDRVVIDSLSALLLY-----DDPEELRRFLRALIKFLK----SRGVTTLLTSE  159 (226)
T ss_dssp             -TSCCHHHHHHHHHHHHHHHTSSEEEEETHHHHTTS-----SSGGGHHHHHHHHHHHHH----HTTEEEEEEEE
T ss_pred             ccccCHHHHHHHHHHHHHhcCCCEEEEECHHHHhhc-----CCHHHHHHHHHHHHHHHH----HCCCEEEEEEc
Confidence              0112223344444445567789999999998321     112223455566665553    23344454544

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

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

Probab=97.31  E-value=0.0011  Score=60.37  Aligned_cols=70  Identities=21%  Similarity=0.281  Sum_probs=41.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhh-------hhh---h---------c-chHHHHHHHHHHhH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELL-------NKY---I---------G-QSEENIRNVFLKAR  290 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~-------~~~---~---------g-~~~~~~~~~~~~a~  290 (478)
                      |+-++|.||+|+||||.+-.+|..+   +..+..++...+.       ..|   .         . .......+.++...
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            4568999999999999888887765   4444444432211       110   0         1 12233455666666


Q ss_pred             hCCCeEEEEcCCc
Q psy450          291 SAAPCVVFFDELD  303 (478)
Q Consensus       291 ~~~p~il~iDeid  303 (478)
                      ..+..+|+||-..
T Consensus        81 ~~~~D~vlIDT~G   93 (196)
T PF00448_consen   81 KKGYDLVLIDTAG   93 (196)
T ss_dssp             HTTSSEEEEEE-S
T ss_pred             hcCCCEEEEecCC
Confidence            6555799999743

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 ....

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=97.31  E-value=0.0016  Score=71.16  Aligned_cols=100  Identities=20%  Similarity=0.283  Sum_probs=59.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh---C--CcEEEEechhh----hhhhhcchHHHHHHHHHHhH----------hCCCe
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC---R--MNFLAVKGPEL----LNKYIGQSEENIRNVFLKAR----------SAAPC  295 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~---~--~~~~~v~~~~l----~~~~~g~~~~~~~~~~~~a~----------~~~p~  295 (478)
                      +-++++|+||||||++++++...+   +  .+++.+....-    +....|.....++.++....          .....
T Consensus       339 ~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g~~a~Tih~lL~~~~~~~~~~~~~~~~~~~  418 (720)
T TIGR01448       339 KVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGLTASTIHRLLGYGPDTFRHNHLEDPIDCD  418 (720)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcCCccccHHHHhhccCCccchhhhhccccCC
Confidence            358999999999999999987655   3  34443333221    22223333344455443211          12357


Q ss_pred             EEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          296 VVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       296 il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                      +|++||+..+.             ...+..|+..+   ....++++++=.+....
T Consensus       419 llIvDEaSMvd-------------~~~~~~Ll~~~---~~~~rlilvGD~~QLps  457 (720)
T TIGR01448       419 LLIVDESSMMD-------------TWLALSLLAAL---PDHARLLLVGDTDQLPS  457 (720)
T ss_pred             EEEEeccccCC-------------HHHHHHHHHhC---CCCCEEEEECccccccC
Confidence            99999998875             34556666543   34456777776555433

This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.31  E-value=0.00057  Score=61.18  Aligned_cols=70  Identities=29%  Similarity=0.231  Sum_probs=40.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc--EEEEechhh--hhhhhcch-HHHHHHHHHHhHhCCCeEEEEcCCc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN--FLAVKGPEL--LNKYIGQS-EENIRNVFLKARSAAPCVVFFDELD  303 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~--~~~v~~~~l--~~~~~g~~-~~~~~~~~~~a~~~~p~il~iDeid  303 (478)
                      ..-+.|.||+|+||||+++.++......  -+.++...+  ..+...-+ ....+-.+..+....|.++++||--
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq~qrv~laral~~~p~lllLDEPt   99 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGELQRVAIAAALLRNATFYLFDEPS   99 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHHHHHHHHHHHHhcCCCEEEEECCc
Confidence            3457899999999999999999765211  122221110  01100011 1123334555666788999999954

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK14532 adenylate kinase; Provisional

Probab=97.31  E-value=0.00022  Score=64.64  Aligned_cols=36  Identities=36%  Similarity=0.577  Sum_probs=29.1

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      ++++.||||+||||+++.+|+.+|..++  +..+++..
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g~~~i--s~~d~lr~   37 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERGMVQL--STGDMLRA   37 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCeEE--eCcHHHHH
Confidence            4899999999999999999999987654  45455544

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.30  E-value=0.0036  Score=58.42  Aligned_cols=129  Identities=17%  Similarity=0.279  Sum_probs=70.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC---cEEEEechhhhhh---h-----hcc--hHHH-----------HHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM---NFLAVKGPELLNK---Y-----IGQ--SEEN-----------IRNVFLKA  289 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~---~~~~v~~~~l~~~---~-----~g~--~~~~-----------~~~~~~~a  289 (478)
                      +-.+++.|++|||||+++..+...+..   +++.+.. .....   +     +..  ....           +.+.....
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~-~~n~~~~~~i~p~~i~~~~~~e~le~~l~~~k~~I~k~~~k~   91 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP-EYNNEYYKYIWPDHIFKVFDKEELEYILIRQKEKIEKYIKKS   91 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec-CCchhhhhhcchhhccccccHHHHHHHHHHHHHHHHHHhhhh
Confidence            446999999999999999998876643   2222221 11111   1     000  0001           11111111


Q ss_pred             Hh---CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEE
Q psy450          290 RS---AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLY  366 (478)
Q Consensus       290 ~~---~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~  366 (478)
                      ..   ..+++|++||+..-.           .-...+..++..   . ..-++.+|.++...-.+|+.++.  -.+..+.
T Consensus        92 ~~~k~~~~~LiIlDD~~~~~-----------~k~~~l~~~~~~---g-RH~~is~i~l~Q~~~~lp~~iR~--n~~y~i~  154 (241)
T PF04665_consen   92 PQKKNNPRFLIILDDLGDKK-----------LKSKILRQFFNN---G-RHYNISIIFLSQSYFHLPPNIRS--NIDYFII  154 (241)
T ss_pred             cccCCCCCeEEEEeCCCCch-----------hhhHHHHHHHhc---c-cccceEEEEEeeecccCCHHHhh--cceEEEE
Confidence            11   236899999963210           002334444431   1 12357788888888889999987  7777776


Q ss_pred             eCCCCCHHHHHHHHHH
Q psy450          367 VGLYEDRISQLGVLKA  382 (478)
Q Consensus       367 ~~~pp~~~~r~~il~~  382 (478)
                      +.  .+..+...|++.
T Consensus       155 ~~--~s~~dl~~i~~~  168 (241)
T PF04665_consen  155 FN--NSKRDLENIYRN  168 (241)
T ss_pred             ec--CcHHHHHHHHHh
Confidence            65  355555444443

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

>PRK13948 shikimate kinase; Provisional

Probab=97.30  E-value=0.00056  Score=61.49  Aligned_cols=33  Identities=24%  Similarity=0.315  Sum_probs=30.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      +..|+|.|.+|+|||++++.+|+.++.+|+..+
T Consensus        10 ~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D   42 (182)
T PRK13948         10 VTWVALAGFMGTGKSRIGWELSRALMLHFIDTD   42 (182)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHcCCCEEECC
Confidence            678999999999999999999999999998655

>PRK06217 hypothetical protein; Validated

Probab=97.29  E-value=0.00024  Score=64.10  Aligned_cols=31  Identities=23%  Similarity=0.408  Sum_probs=28.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      .|+|.|+||+||||+++.+++.++.+++..+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~D   33 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIPHLDTD   33 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEcC
Confidence            4899999999999999999999998876655

>PRK06696 uridine kinase; Validated

Probab=97.29  E-value=0.00063  Score=63.52  Aligned_cols=37  Identities=19%  Similarity=0.206  Sum_probs=30.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l  270 (478)
                      +.-|.+.|++|+||||+|+.|+..+   |.+++.+...++
T Consensus        22 ~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf   61 (223)
T PRK06696         22 PLRVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDF   61 (223)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeccccc
Confidence            6668899999999999999999998   667777665554

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=97.29  E-value=0.00032  Score=68.36  Aligned_cols=70  Identities=20%  Similarity=0.305  Sum_probs=47.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC-----CcEEEEec-hhhhhh-------hhcchHHHHHHHHHHhHhCCCeEEEEc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR-----MNFLAVKG-PELLNK-------YIGQSEENIRNVFLKARSAAPCVVFFD  300 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~-----~~~~~v~~-~~l~~~-------~~g~~~~~~~~~~~~a~~~~p~il~iD  300 (478)
                      ..++++.||+|+||||+++++...+.     ..++.+.. .++.-.       ..+.....+.+++..+....|..|++.
T Consensus       132 ~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~v~~~~~~~~~~~~~~l~~aLR~~pD~iivG  211 (299)
T TIGR02782       132 RKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNVVQLRTSDDAISMTRLLKATLRLRPDRIIVG  211 (299)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCEEEEEecCCCCCHHHHHHHHhcCCCCEEEEe
Confidence            45799999999999999999998762     33443332 122100       011111156678888888999999999


Q ss_pred             CCc
Q psy450          301 ELD  303 (478)
Q Consensus       301 eid  303 (478)
                      |+-
T Consensus       212 EiR  214 (299)
T TIGR02782       212 EVR  214 (299)
T ss_pred             ccC
Confidence            973

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.29  E-value=0.00024  Score=61.03  Aligned_cols=28  Identities=29%  Similarity=0.621  Sum_probs=26.0

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      |-+.|||||||||+++.+|+.+|.++++
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl~~vs   30 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGLKLVS   30 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCCceee
Confidence            6688999999999999999999999876

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=97.28  E-value=0.00035  Score=61.37  Aligned_cols=40  Identities=28%  Similarity=0.493  Sum_probs=32.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhc
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIG  276 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g  276 (478)
                      .+|+|.|++|+||||+.+.+|+.++.+|+-.+  .++....|
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D--~~Ie~~~g   42 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPFIDTD--QEIEKRTG   42 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCcccch--HHHHHHHC
Confidence            46999999999999999999999999997665  34444444

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=97.28  E-value=0.0036  Score=61.45  Aligned_cols=33  Identities=24%  Similarity=0.497  Sum_probs=29.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      ...|+|+|+||||||++++.+++.+|.+++.++
T Consensus       133 ~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D  165 (309)
T PRK08154        133 RRRIALIGLRGAGKSTLGRMLAARLGVPFVELN  165 (309)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHcCCCEEeHH
Confidence            667999999999999999999999999998544

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.28  E-value=0.00083  Score=66.98  Aligned_cols=108  Identities=24%  Similarity=0.390  Sum_probs=59.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh----C-CcEEEEechhhh-------h---hhhc------chHHHHHHHHHHhHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC----R-MNFLAVKGPELL-------N---KYIG------QSEENIRNVFLKARSA  292 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~----~-~~~~~v~~~~l~-------~---~~~g------~~~~~~~~~~~~a~~~  292 (478)
                      +..++|.||+|+||||++..+|..+    | ..+..+....+.       .   ...|      .+...+...+...  .
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l--~  214 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAEL--R  214 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHh--c
Confidence            4568999999999999999998764    3 344445443321       1   0111      1111223333332  3


Q ss_pred             CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC-CCCeEEEEEcCCCCCCCccc
Q psy450          293 APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT-SQDVFILGATNRVDLLDPAI  355 (478)
Q Consensus       293 ~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~v~vI~ttn~~~~ld~~l  355 (478)
                      ...+|+||.......            +..+...+..+..... ...++|+.+|+..+.+...+
T Consensus       215 ~~DlVLIDTaG~~~~------------d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi  266 (374)
T PRK14722        215 NKHMVLIDTIGMSQR------------DRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVV  266 (374)
T ss_pred             CCCEEEEcCCCCCcc------------cHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHH
Confidence            447999999754321            1233444444443322 23577777777776655443

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

Probab=97.28  E-value=0.019  Score=55.08  Aligned_cols=133  Identities=16%  Similarity=0.205  Sum_probs=89.9

Q ss_pred             hhcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCC--cEEEEe-------e-CH---hHHhccccEE
Q psy450           41 KKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQH--KKKLVL-------I-RK---QIQKLFLKTI  107 (478)
Q Consensus        41 ~~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~--~v~via-------l-d~---al~rRf~~~i  107 (478)
                      ...++.||+|||++.+.... +..+-.-.+..           .....  .|+++|       + ++   .+.+|+...+
T Consensus       120 ~~~~~~vliiDe~~~l~~~~-~~~l~~l~~~~-----------~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~  187 (269)
T TIGR03015       120 AAGKRALLVVDEAQNLTPEL-LEELRMLSNFQ-----------TDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASC  187 (269)
T ss_pred             hCCCCeEEEEECcccCCHHH-HHHHHHHhCcc-----------cCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeee
Confidence            45678999999999875432 11111001100           01122  344555       2 22   3556888899


Q ss_pred             EeCCCCHHHHHHHHHHHHhhcCC--CCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Q psy450          108 NVLPLTEPERRLLIQYQLDCLGG--DYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIY  185 (478)
Q Consensus       108 ~~~~P~~~~r~~il~~~~~~~~~--~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~  185 (478)
                      +++..+.++..+++...+...+.  ....+.+.++.|++.|.|.... |..+|..+...+..+   +...|+.+++..++
T Consensus       188 ~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~-i~~l~~~~~~~a~~~---~~~~i~~~~v~~~~  263 (269)
T TIGR03015       188 HLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRL-INILCDRLLLSAFLE---EKREIGGEEVREVI  263 (269)
T ss_pred             eCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccH-HHHHHHHHHHHHHHc---CCCCCCHHHHHHHH
Confidence            99999999999999988865431  1234445569999999998754 999999998888754   56789999999998


Q ss_pred             HHhh
Q psy450          186 DDLQ  189 (478)
Q Consensus       186 ~~~~  189 (478)
                      ..++
T Consensus       264 ~~~~  267 (269)
T TIGR03015       264 AEID  267 (269)
T ss_pred             HHhh
Confidence            8764

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.27  E-value=0.00025  Score=63.97  Aligned_cols=35  Identities=20%  Similarity=0.443  Sum_probs=28.2

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      |+++||||+||||+|+.+|+.++..  +++..+++..
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~~--~is~~d~lr~   36 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGFT--HLSAGDLLRA   36 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCe--EEECChHHHH
Confidence            7899999999999999999999864  4555555443

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.

>KOG0743|consensus

Probab=97.27  E-value=0.0013  Score=65.61  Aligned_cols=101  Identities=10%  Similarity=0.025  Sum_probs=71.9

Q ss_pred             CCCeEEEecccccccch-----------------hhHhhhccccccccccccchhhhccCCCcEEEEe------eCHhHH
Q psy450           44 NLDIFKYDEVNYLCNVK-----------------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------IRKQIQ  100 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r-----------------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------ld~al~  100 (478)
                      +.+||+|.+||+=+..+                 .++.||+.+|++-..         -.+++|+|..      |||||+
T Consensus       286 ~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSs---------cg~ERIivFTTNh~EkLDPALl  356 (457)
T KOG0743|consen  286 NKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSS---------CGDERIIVFTTNHKEKLDPALL  356 (457)
T ss_pred             CCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhcccccc---------CCCceEEEEecCChhhcCHhhc
Confidence            57999999999765432                 256688888865321         2246788888      999999


Q ss_pred             h--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCC--CCHHHHHHHH
Q psy450          101 K--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSG--FERHDLTCLV  158 (478)
Q Consensus       101 r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G--~s~~di~~l~  158 (478)
                      |  |.|.+|+++.=+.++-..+.+.|+..-     .+..+.+.+.+.-+|  .|+||+...+
T Consensus       357 RpGRmDmhI~mgyCtf~~fK~La~nYL~~~-----~~h~L~~eie~l~~~~~~tPA~V~e~l  413 (457)
T KOG0743|consen  357 RPGRMDMHIYMGYCTFEAFKTLASNYLGIE-----EDHRLFDEIERLIEETEVTPAQVAEEL  413 (457)
T ss_pred             CCCcceeEEEcCCCCHHHHHHHHHHhcCCC-----CCcchhHHHHHHhhcCccCHHHHHHHH
Confidence            9  999999999999999888888888542     122222444444333  6888886643

>TIGR00416 sms DNA repair protein RadA

Probab=97.27  E-value=0.0016  Score=67.13  Aligned_cols=77  Identities=29%  Similarity=0.453  Sum_probs=52.0

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh------hcch--------HHHHHHHHHHhHhC
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY------IGQS--------EENIRNVFLKARSA  292 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~------~g~~--------~~~~~~~~~~a~~~  292 (478)
                      |.+ ..-+++.|+||+|||+++..++...   +.++++++..+-..+.      .|..        +..+..+...+...
T Consensus        90 Gi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs~~qi~~ra~rlg~~~~~l~~~~e~~~~~I~~~i~~~  169 (454)
T TIGR00416        90 GIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEESLQQIKMRAIRLGLPEPNLYVLSETNWEQICANIEEE  169 (454)
T ss_pred             CccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCCHHHHHHHHHHcCCChHHeEEcCCCCHHHHHHHHHhc
Confidence            444 4557899999999999999987755   4577888764332221      1111        11244555566667


Q ss_pred             CCeEEEEcCCccccC
Q psy450          293 APCVVFFDELDSLAP  307 (478)
Q Consensus       293 ~p~il~iDeid~l~~  307 (478)
                      .|.+++||.+..+..
T Consensus       170 ~~~~vVIDSIq~l~~  184 (454)
T TIGR00416       170 NPQACVIDSIQTLYS  184 (454)
T ss_pred             CCcEEEEecchhhcc
Confidence            899999999998864

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.27  E-value=0.002  Score=60.66  Aligned_cols=37  Identities=30%  Similarity=0.395  Sum_probs=28.1

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHH---hCCcEEEEec
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATE---CRMNFLAVKG  267 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~---~~~~~~~v~~  267 (478)
                      |.+ +..+|++||||+|||+++..++.+   -|.+.++++.
T Consensus        17 G~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~   57 (237)
T TIGR03877        17 GIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVAL   57 (237)
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEe
Confidence            555 667899999999999999877554   2667777664

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>KOG2028|consensus

Probab=97.26  E-value=0.0042  Score=60.28  Aligned_cols=140  Identities=13%  Similarity=0.117  Sum_probs=92.5

Q ss_pred             hhhhhHHHHhhhh-----cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe---------e
Q psy450           30 HHLNDIVKINLKK-----YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------I   95 (478)
Q Consensus        30 ~~~~~if~~~a~~-----~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------l   95 (478)
                      .-+|+||+ .++.     .+..|||||||+.+-+..        -|.+.         +.-.++.|++||         +
T Consensus       204 ~dvR~ife-~aq~~~~l~krkTilFiDEiHRFNksQ--------QD~fL---------P~VE~G~I~lIGATTENPSFql  265 (554)
T KOG2028|consen  204 NDVRDIFE-QAQNEKSLTKRKTILFIDEIHRFNKSQ--------QDTFL---------PHVENGDITLIGATTENPSFQL  265 (554)
T ss_pred             HHHHHHHH-HHHHHHhhhcceeEEEeHHhhhhhhhh--------hhccc---------ceeccCceEEEecccCCCccch
Confidence            46899998 8875     357999999999775433        22221         112367799999         9


Q ss_pred             CHhHHhccccEEEeCCCCHHHHHHHHHHHHhhc----------CCCC-CCChhHHHHHHHhcCCCCHHHHHHHHHHHHHH
Q psy450           96 RKQIQKLFLKTINVLPLTEPERRLLIQYQLDCL----------GGDY-GFDASLVEYLSSVTSGFERHDLTCLVRLSVKN  164 (478)
Q Consensus        96 d~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~----------~~~~-~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~  164 (478)
                      +.|+++|- +++-+..-...+-..||.+-+..+          +++. ..+...+++++..++|=.-+-+..+--.+.+.
T Consensus       266 n~aLlSRC-~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR~aLN~Lems~~m~  344 (554)
T KOG2028|consen  266 NAALLSRC-RVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDARAALNALEMSLSMF  344 (554)
T ss_pred             hHHHHhcc-ceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHHHHHHHHHHHHHHH
Confidence            99999987 556666667777888888755422          1111 13456679999999987666655543333333


Q ss_pred             HHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          165 KMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       165 a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      ..+..+.....++.+|....+..-
T Consensus       345 ~tr~g~~~~~~lSidDvke~lq~s  368 (554)
T KOG2028|consen  345 CTRSGQSSRVLLSIDDVKEGLQRS  368 (554)
T ss_pred             HhhcCCcccceecHHHHHHHHhhc
Confidence            333333456788888888777654

>PRK14531 adenylate kinase; Provisional

Probab=97.25  E-value=0.00031  Score=63.42  Aligned_cols=34  Identities=35%  Similarity=0.604  Sum_probs=28.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      .++++||||+||||+++.+|+.+|.+.+.  ..+++
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~g~~~is--~gd~l   37 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAHGLRHLS--TGDLL   37 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeEe--cccHH
Confidence            49999999999999999999999877654  43444

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=97.25  E-value=0.00039  Score=62.97  Aligned_cols=69  Identities=22%  Similarity=0.358  Sum_probs=44.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC--cEEEEech-hhhhh---h----------hcchHHHHHHHHHHhHhCCCeEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM--NFLAVKGP-ELLNK---Y----------IGQSEENIRNVFLKARSAAPCVV  297 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~--~~~~v~~~-~l~~~---~----------~g~~~~~~~~~~~~a~~~~p~il  297 (478)
                      ...+++.||+|+||||++++++..+..  ..+.+... ++...   .          .+.....+.+.+..+....|.++
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i~~~~~~i~ied~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~lR~~pd~i  104 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFIPPDERIITIEDTAELQLPHPNWVRLVTRPGNVEGSGEVTMADLLRSALRMRPDRI  104 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcCCCCCEEEECCccccCCCCCCEEEEEEecCCCCCCCccCHHHHHHHHhccCCCEE
Confidence            456999999999999999999987632  23332211 11100   0          01122345667777778889999


Q ss_pred             EEcCC
Q psy450          298 FFDEL  302 (478)
Q Consensus       298 ~iDei  302 (478)
                      ++.|+
T Consensus       105 ~igEi  109 (186)
T cd01130         105 IVGEV  109 (186)
T ss_pred             EEEcc
Confidence            99997

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.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=97.24  E-value=0.00031  Score=62.94  Aligned_cols=36  Identities=22%  Similarity=0.287  Sum_probs=30.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      +-++|.|+||+||||+|+.+++.++.+++.++...+
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~~~~~~~~~D~~   38 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLAEPWLHFGVDSF   38 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhCCCccccCccHH
Confidence            458999999999999999999999887776655443

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

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.23  E-value=0.0016  Score=56.25  Aligned_cols=69  Identities=22%  Similarity=0.326  Sum_probs=40.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc--EEEEech---hhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCcc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN--FLAVKGP---ELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDS  304 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~--~~~v~~~---~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~  304 (478)
                      ...+.+.||+|+|||+++++++......  -+.++..   .+.....+  ....+-.+..+...+|.++++||-..
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~~~~~i~~~~~lS~--G~~~rv~laral~~~p~illlDEP~~   99 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGSTVKIGYFEQLSG--GEKMRLALAKLLLENPNLLLLDEPTN   99 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCCCCCceEEEECCeEEEEEEccCCH--HHHHHHHHHHHHhcCCCEEEEeCCcc
Confidence            4457899999999999999998765311  1111110   00000111  11223345566667889999999543

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.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.23  E-value=0.00051  Score=68.43  Aligned_cols=70  Identities=20%  Similarity=0.366  Sum_probs=46.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC----CcEEEEec-hhhhh---------hhhcchHHHHHHHHHHhHhCCCeEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR----MNFLAVKG-PELLN---------KYIGQSEENIRNVFLKARSAAPCVVFF  299 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~----~~~~~v~~-~~l~~---------~~~g~~~~~~~~~~~~a~~~~p~il~i  299 (478)
                      ...+++.||+|+||||+++++...+.    ..++.+.. .++..         ...|.........+..+....|.+|++
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            34589999999999999999988664    23333321 12211         011222233566677777889999999


Q ss_pred             cCCc
Q psy450          300 DELD  303 (478)
Q Consensus       300 Deid  303 (478)
                      ||+-
T Consensus       202 gEir  205 (343)
T TIGR01420       202 GEMR  205 (343)
T ss_pred             eCCC
Confidence            9973

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.23  E-value=0.0026  Score=63.32  Aligned_cols=26  Identities=27%  Similarity=0.469  Sum_probs=22.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      ....+++||||+|||++++.+++...
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~  194 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSIT  194 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHH
Confidence            34489999999999999999998763

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.22  E-value=0.0025  Score=60.53  Aligned_cols=34  Identities=24%  Similarity=0.506  Sum_probs=28.1

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhh
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPEL  270 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l  270 (478)
                      |+|+|+||+||||+|+.+++.+   +..++.++...+
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~D~l   38 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILGTDLI   38 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEccHHH
Confidence            7899999999999999999887   456777765444

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.

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=97.22  E-value=0.0016  Score=59.32  Aligned_cols=111  Identities=23%  Similarity=0.373  Sum_probs=59.9

Q ss_pred             hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccC
Q psy450          229 TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAP  307 (478)
Q Consensus       229 ~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~  307 (478)
                      .+|.+ ...++|.|+-|+|||+..+.|+.+.-     .+.  +. .  .........+    ...  -++.+||++.+..
T Consensus        46 ~pg~k~d~~lvl~G~QG~GKStf~~~L~~~~~-----~d~--~~-~--~~~kd~~~~l----~~~--~iveldEl~~~~k  109 (198)
T PF05272_consen   46 EPGCKNDTVLVLVGKQGIGKSTFFRKLGPEYF-----SDS--IN-D--FDDKDFLEQL----QGK--WIVELDELDGLSK  109 (198)
T ss_pred             CCCCcCceeeeEecCCcccHHHHHHHHhHHhc-----cCc--cc-c--CCCcHHHHHH----HHh--HheeHHHHhhcch
Confidence            44555 44578899999999999999966521     111  00 0  0111111121    111  3889999988762


Q ss_pred             CCCCCCCCchhHHHHHHHHHHh-hcCCCC---------CCCeEEEEEcCCCCCC-CccccCCCCCCeEEEeC
Q psy450          308 RRGQEDQSSGVMDRVVSQLLAE-MDGVHT---------SQDVFILGATNRVDLL-DPAILRPGRLDKSLYVG  368 (478)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~ll~~-l~~~~~---------~~~v~vI~ttn~~~~l-d~~l~~~~Rf~~~i~~~  368 (478)
                      ..          ...+..++.. .+.++.         .+..++|+|||..+.| |+.=-|  || ..+.+.
T Consensus       110 ~~----------~~~lK~~iT~~~~~~R~pY~~~~~~~~R~~~figTtN~~~~L~D~TGnR--Rf-~~v~v~  168 (198)
T PF05272_consen  110 KD----------VEALKSFITRRTDTYRPPYGRDPEEFPRRAVFIGTTNDDDFLKDPTGNR--RF-WPVEVS  168 (198)
T ss_pred             hh----------HHHHHHHhcccceeeecCCcCcceeeceeEEEEeccCCcceeeCCCCCe--EE-EEEEEc
Confidence            11          1223333322 222221         2347789999998755 444445  66 444443

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.22  E-value=0.0021  Score=58.02  Aligned_cols=116  Identities=21%  Similarity=0.264  Sum_probs=69.8

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEech----hhhhh-----------------------------
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP----ELLNK-----------------------------  273 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~----~l~~~-----------------------------  273 (478)
                      |.| +.-+++.|+.|||||.+++.++.-+   +..+.+++..    ++..+                             
T Consensus        24 GiP~GsL~lIEGd~~tGKSvLsqr~~YG~L~~g~~v~yvsTe~T~refi~qm~sl~ydv~~~~l~G~l~~~~~~~~~~~~  103 (235)
T COG2874          24 GIPVGSLILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVSTELTVREFIKQMESLSYDVSDFLLSGRLLFFPVNLEPVNW  103 (235)
T ss_pred             CCccCeEEEEECCCCccHHHHHHHHHHHHHhCCceEEEEEechhHHHHHHHHHhcCCCchHHHhcceeEEEEeccccccc
Confidence            455 5668889999999999999998644   4444444321    11111                             


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCc
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDP  353 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~  353 (478)
                      ......+.+..+.+..+.+...|++||-+..+....      +   ...+..++..+..+.+.++++++  |-+|+.+++
T Consensus       104 ~~~~~~~~L~~l~~~~k~~~~dViIIDSls~~~~~~------~---~~~vl~fm~~~r~l~d~gKvIil--Tvhp~~l~e  172 (235)
T COG2874         104 GRRSARKLLDLLLEFIKRWEKDVIIIDSLSAFATYD------S---EDAVLNFMTFLRKLSDLGKVIIL--TVHPSALDE  172 (235)
T ss_pred             ChHHHHHHHHHHHhhHHhhcCCEEEEecccHHhhcc------c---HHHHHHHHHHHHHHHhCCCEEEE--EeChhhcCH
Confidence            012233345555666666777899999998877432      1   23445555555555445555444  455677887


Q ss_pred             cccC
Q psy450          354 AILR  357 (478)
Q Consensus       354 ~l~~  357 (478)
                      +...
T Consensus       173 ~~~~  176 (235)
T COG2874         173 DVLT  176 (235)
T ss_pred             HHHH
Confidence            7654

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.21  E-value=0.0017  Score=58.68  Aligned_cols=50  Identities=24%  Similarity=0.304  Sum_probs=31.8

Q ss_pred             HHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEE
Q psy450          283 RNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGA  344 (478)
Q Consensus       283 ~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~t  344 (478)
                      |-.+.+|....|.++++||--+..            ..+++.+.+..|..+...+-.+++.|
T Consensus       144 RVAIARALaM~P~vmLFDEPTSAL------------DPElv~EVL~vm~~LA~eGmTMivVT  193 (240)
T COG1126         144 RVAIARALAMDPKVMLFDEPTSAL------------DPELVGEVLDVMKDLAEEGMTMIIVT  193 (240)
T ss_pred             HHHHHHHHcCCCCEEeecCCcccC------------CHHHHHHHHHHHHHHHHcCCeEEEEe
Confidence            345566677889999999965443            23566666666665555554555544

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.21  E-value=0.0024  Score=57.09  Aligned_cols=23  Identities=17%  Similarity=0.277  Sum_probs=19.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      +.-+.|.||+|+||||+.+++..
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhh
Confidence            34578999999999999999964

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.19  E-value=0.00073  Score=68.67  Aligned_cols=91  Identities=22%  Similarity=0.307  Sum_probs=58.1

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc---EEEEec-hhhh--------
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN---FLAVKG-PELL--------  271 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~---~~~v~~-~~l~--------  271 (478)
                      .++++++......+.+.+.+..|.       .-+|++||+|+|||+..-++.++++.+   ++.+.- -++.        
T Consensus       235 l~l~~Lg~~~~~~~~~~~~~~~p~-------GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~~~~gI~Q~q  307 (500)
T COG2804         235 LDLEKLGMSPFQLARLLRLLNRPQ-------GLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEYQLPGINQVQ  307 (500)
T ss_pred             CCHHHhCCCHHHHHHHHHHHhCCC-------eEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeeeecCCcceee
Confidence            346677777777777777665442       236788999999999999998888543   322221 1111        


Q ss_pred             -hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCcc
Q psy450          272 -NKYIGQSEENIRNVFLKARSAAPCVVFFDELDS  304 (478)
Q Consensus       272 -~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~  304 (478)
                       +.-.|.+   ....++......|+||++.||-.
T Consensus       308 VN~k~glt---fa~~LRa~LRqDPDvImVGEIRD  338 (500)
T COG2804         308 VNPKIGLT---FARALRAILRQDPDVIMVGEIRD  338 (500)
T ss_pred             cccccCCC---HHHHHHHHhccCCCeEEEeccCC
Confidence             0011222   33455666778999999999854

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.19  E-value=0.007  Score=56.93  Aligned_cols=123  Identities=10%  Similarity=0.130  Sum_probs=79.6

Q ss_pred             CCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCC-cEEEEe---------eCHhHHhccc--cEEEeCC
Q psy450           45 LDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQH-KKKLVL---------IRKQIQKLFL--KTINVLP  111 (478)
Q Consensus        45 p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~-~v~via---------ld~al~rRf~--~~i~~~~  111 (478)
                      -.+|+|||++.+.++. ....+..-++..           .+.+. .+++.+         +.|++++|+.  ..+.+..
T Consensus        98 ~dlliiDdi~~~~~~~~~~~~lf~l~n~~-----------~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~  166 (235)
T PRK08084         98 LSLVCIDNIECIAGDELWEMAIFDLYNRI-----------LESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQP  166 (235)
T ss_pred             CCEEEEeChhhhcCCHHHHHHHHHHHHHH-----------HHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecC
Confidence            3689999999987654 122222333321           02222 344444         6899999996  7899999


Q ss_pred             CCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Q psy450          112 LTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIY  185 (478)
Q Consensus       112 P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~  185 (478)
                      |+.++|.++++......  .+..+.+.+++|+.+.+| +...+..++......+..    .+.+||..-+.+++
T Consensus       167 ~~~~~~~~~l~~~a~~~--~~~l~~~v~~~L~~~~~~-d~r~l~~~l~~l~~~~l~----~~~~it~~~~k~~l  233 (235)
T PRK08084        167 LSDEEKLQALQLRARLR--GFELPEDVGRFLLKRLDR-EMRTLFMTLDQLDRASIT----AQRKLTIPFVKEIL  233 (235)
T ss_pred             CCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHhhcC-CHHHHHHHHHHHHHHHHh----cCCCCCHHHHHHHH
Confidence            99999999999877665  355667777999998774 445666666653322221    24567766655543

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=97.19  E-value=0.001  Score=65.73  Aligned_cols=70  Identities=19%  Similarity=0.311  Sum_probs=47.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC--cEEEEe-chhhhh-h------------hhcchHHHHHHHHHHhHhCCCeEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM--NFLAVK-GPELLN-K------------YIGQSEENIRNVFLKARSAAPCVV  297 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~--~~~~v~-~~~l~~-~------------~~g~~~~~~~~~~~~a~~~~p~il  297 (478)
                      ..++++.|++|+||||+++++......  .++.+. ..++.- .            ..+...-...+++..+...+|..|
T Consensus       160 ~~nili~G~tgSGKTTll~aL~~~ip~~~ri~tiEd~~El~l~~~~n~~~~~~~~~~~~~~~~~~~~ll~~~LR~~PD~I  239 (332)
T PRK13900        160 KKNIIISGGTSTGKTTFTNAALREIPAIERLITVEDAREIVLSNHPNRVHLLASKGGQGRAKVTTQDLIEACLRLRPDRI  239 (332)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHhhCCCCCeEEEecCCCccccccCCCEEEEEecCCCCCcCcCcHHHHHHHHhccCCCeE
Confidence            557999999999999999999987743  333331 112210 0            011122245678888889999999


Q ss_pred             EEcCCc
Q psy450          298 FFDELD  303 (478)
Q Consensus       298 ~iDeid  303 (478)
                      ++.|+-
T Consensus       240 ivGEiR  245 (332)
T PRK13900        240 IVGELR  245 (332)
T ss_pred             EEEecC
Confidence            999974

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

Probab=97.18  E-value=0.00035  Score=60.74  Aligned_cols=28  Identities=29%  Similarity=0.579  Sum_probs=24.6

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      ++++|+||+||||+|+.+++.++..++.
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~i~   29 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPFID   29 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEEEe
Confidence            6899999999999999999998876543

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

>PTZ00202 tuzin; Provisional

Probab=97.18  E-value=0.026  Score=56.96  Aligned_cols=62  Identities=11%  Similarity=0.116  Sum_probs=48.7

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEech
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGP  268 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~  268 (478)
                      ....+++|-+.....|...+......   .+.-+.|+|++|||||++++.+...++.+.+.++..
T Consensus       259 a~~~~FVGReaEla~Lr~VL~~~d~~---~privvLtG~~G~GKTTLlR~~~~~l~~~qL~vNpr  320 (550)
T PTZ00202        259 AVIRQFVSREAEESWVRQVLRRLDTA---HPRIVVFTGFRGCGKSSLCRSAVRKEGMPAVFVDVR  320 (550)
T ss_pred             CCccCCCCcHHHHHHHHHHHhccCCC---CceEEEEECCCCCCHHHHHHHHHhcCCceEEEECCC
Confidence            34568999999999998887643211   145678999999999999999999998777777754

>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=97.17  E-value=0.00038  Score=60.08  Aligned_cols=30  Identities=30%  Similarity=0.604  Sum_probs=27.7

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      |.+.|+||||||++|+.++..++.+++..+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence            689999999999999999999999987765

>PRK14530 adenylate kinase; Provisional

Probab=97.17  E-value=0.00042  Score=64.27  Aligned_cols=30  Identities=30%  Similarity=0.541  Sum_probs=26.6

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      .|+|.||||+||||+++.+|+.++.+++..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~~~~i~~   34 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFGVEHVTT   34 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            599999999999999999999998776543

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.15  E-value=0.00035  Score=61.70  Aligned_cols=27  Identities=37%  Similarity=0.635  Sum_probs=24.0

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      +++.||+|+||||+++.+++.++..++
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~v   27 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKFI   27 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeEE
Confidence            478999999999999999999986654

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.

>PRK13764 ATPase; Provisional

Probab=97.15  E-value=0.00081  Score=70.98  Aligned_cols=70  Identities=23%  Similarity=0.347  Sum_probs=42.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC---cEEEEe-chhh-----hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCcc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM---NFLAVK-GPEL-----LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDS  304 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~---~~~~v~-~~~l-----~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~  304 (478)
                      ..++|++||||+||||++++++..+..   .+..+. ..++     ..++.. ...........+....|.++++||+-.
T Consensus       257 ~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~TiEDp~El~~~~~i~q~~~-~~~~~~~~~~~lLR~rPD~IivGEiRd  335 (602)
T PRK13764        257 AEGILIAGAPGAGKSTFAQALAEFYADMGKIVKTMESPRDLQVPPEITQYSK-LEGSMEETADILLLVRPDYTIYDEMRK  335 (602)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEECCCccccCCCcceEEee-ccccHHHHHHHHHhhCCCEEEECCCCC
Confidence            567999999999999999999987742   232331 1122     112110 001112233333567899999999754

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=97.15  E-value=0.0021  Score=55.89  Aligned_cols=35  Identities=26%  Similarity=0.432  Sum_probs=29.2

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhh
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELL  271 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~  271 (478)
                      +++.|+||+|||++++.++..+   +.+.+.++...+.
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~~d~~r   39 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDGDNVR   39 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCHHHH
Confidence            6899999999999999999988   6667777765543

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=97.14  E-value=0.0011  Score=68.90  Aligned_cols=94  Identities=19%  Similarity=0.239  Sum_probs=58.7

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEec-hhhhhhh-----
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR---MNFLAVKG-PELLNKY-----  274 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~~-~~l~~~~-----  274 (478)
                      .++++++-.++..+.+..++..+       ..-++++||+|+||||++.++.+.+.   .+++.+.. .++.-..     
T Consensus       219 ~~l~~Lg~~~~~~~~l~~~~~~~-------~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~~~~~~~q~~  291 (486)
T TIGR02533       219 LDLETLGMSPELLSRFERLIRRP-------HGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEYQIEGIGQIQ  291 (486)
T ss_pred             CCHHHcCCCHHHHHHHHHHHhcC-------CCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeeeecCCCceEE
Confidence            45677777777777776655432       22378999999999999998877663   33444432 1111110     


Q ss_pred             hc-chHHHHHHHHHHhHhCCCeEEEEcCCcc
Q psy450          275 IG-QSEENIRNVFLKARSAAPCVVFFDELDS  304 (478)
Q Consensus       275 ~g-~~~~~~~~~~~~a~~~~p~il~iDeid~  304 (478)
                      ++ .........+..+....|.+|++.|+-.
T Consensus       292 v~~~~g~~f~~~lr~~LR~dPDvI~vGEiRd  322 (486)
T TIGR02533       292 VNPKIGLTFAAGLRAILRQDPDIIMVGEIRD  322 (486)
T ss_pred             EccccCccHHHHHHHHHhcCCCEEEEeCCCC
Confidence            11 1112345566777788999999999743

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.14  E-value=0.0079  Score=62.33  Aligned_cols=130  Identities=12%  Similarity=0.123  Sum_probs=83.9

Q ss_pred             hhhhHHHHhhhh----cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEE-e------eCHhH
Q psy450           31 HLNDIVKINLKK----YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLV-L------IRKQI   99 (478)
Q Consensus        31 ~~~~if~~~a~~----~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~vi-a------ld~al   99 (478)
                      .+|.+.+ .+..    ....|+||||+|.+... ..+.++..++.              ..+.+++| +      +++++
T Consensus       101 ~iR~i~~-~~~~~p~~~~~kVvIIDE~h~Lt~~-a~~~LLk~LE~--------------p~~~vv~Ilattn~~kl~~~L  164 (472)
T PRK14962        101 EIRKIRD-AVGYRPMEGKYKVYIIDEVHMLTKE-AFNALLKTLEE--------------PPSHVVFVLATTNLEKVPPTI  164 (472)
T ss_pred             HHHHHHH-HHhhChhcCCeEEEEEEChHHhHHH-HHHHHHHHHHh--------------CCCcEEEEEEeCChHhhhHHH
Confidence            4565554 3331    13469999999998543 35667777763              22334444 3      88999


Q ss_pred             HhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHH
Q psy450          100 QKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKE  179 (478)
Q Consensus       100 ~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~  179 (478)
                      ++|+ ..+.|..|+.++...+++..+...  ....+.+.++.|+..+.| +..++.+.+..+...       ....|+.+
T Consensus       165 ~SR~-~vv~f~~l~~~el~~~L~~i~~~e--gi~i~~eal~~Ia~~s~G-dlR~aln~Le~l~~~-------~~~~It~e  233 (472)
T PRK14962        165 ISRC-QVIEFRNISDELIIKRLQEVAEAE--GIEIDREALSFIAKRASG-GLRDALTMLEQVWKF-------SEGKITLE  233 (472)
T ss_pred             hcCc-EEEEECCccHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHhCC-CHHHHHHHHHHHHHh-------cCCCCCHH
Confidence            9999 589999999999999999988765  334455556888887654 334444444432221       11248888


Q ss_pred             HHHHHHHH
Q psy450          180 DFQQIYDD  187 (478)
Q Consensus       180 d~~~a~~~  187 (478)
                      ++..++..
T Consensus       234 ~V~~~l~~  241 (472)
T PRK14962        234 TVHEALGL  241 (472)
T ss_pred             HHHHHHcC
Confidence            88776653

>PRK06547 hypothetical protein; Provisional

Probab=97.13  E-value=0.00052  Score=61.17  Aligned_cols=33  Identities=27%  Similarity=0.448  Sum_probs=28.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      +.-|++.|++|||||++++.+++.++.+++..+
T Consensus        15 ~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~d   47 (172)
T PRK06547         15 MITVLIDGRSGSGKTTLAGALAARTGFQLVHLD   47 (172)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCCeeccc
Confidence            566889999999999999999999988777654

>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=97.13  E-value=0.00041  Score=63.06  Aligned_cols=35  Identities=34%  Similarity=0.642  Sum_probs=28.3

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      |++.||||+|||++++.||+.++..++  +..+++..
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~~~~i--~~~~l~~~   36 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYGLPHI--STGDLLRE   36 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEE--ECcHHHHH
Confidence            899999999999999999999887654  44455433

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

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.13  E-value=0.011  Score=59.41  Aligned_cols=130  Identities=14%  Similarity=0.197  Sum_probs=86.2

Q ss_pred             hhhhhHHHHhhhh----cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcE-EEEe------eCHh
Q psy450           30 HHLNDIVKINLKK----YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKK-KLVL------IRKQ   98 (478)
Q Consensus        30 ~~~~~if~~~a~~----~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v-~via------ld~a   98 (478)
                      ..++.+.+ .+..    ....|++|||+|.+-. ...+.+|..++.              ..+.+ +|++      +.+.
T Consensus       102 ~~ir~i~~-~~~~~p~~~~~kviIIDEa~~l~~-~a~naLLk~lEe--------------~~~~~~fIl~t~~~~~l~~t  165 (363)
T PRK14961        102 EEMREILD-NIYYSPSKSRFKVYLIDEVHMLSR-HSFNALLKTLEE--------------PPQHIKFILATTDVEKIPKT  165 (363)
T ss_pred             HHHHHHHH-HHhcCcccCCceEEEEEChhhcCH-HHHHHHHHHHhc--------------CCCCeEEEEEcCChHhhhHH
Confidence            34556654 3321    1245999999998853 345677777773              22233 3333      8888


Q ss_pred             HHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCH
Q psy450           99 IQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQK  178 (478)
Q Consensus        99 l~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~  178 (478)
                      +.+|+ ..++|+.|+.++..++++..++..+  ...+.+.++.++..+.| +..++.+++..++..       +...++.
T Consensus       166 I~SRc-~~~~~~~l~~~el~~~L~~~~~~~g--~~i~~~al~~ia~~s~G-~~R~al~~l~~~~~~-------~~~~It~  234 (363)
T PRK14961        166 ILSRC-LQFKLKIISEEKIFNFLKYILIKES--IDTDEYALKLIAYHAHG-SMRDALNLLEHAINL-------GKGNINI  234 (363)
T ss_pred             HHhhc-eEEeCCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHh-------cCCCCCH
Confidence            99898 6799999999999999999887763  33444555888888765 556666666655432       2456888


Q ss_pred             HHHHHHHH
Q psy450          179 EDFQQIYD  186 (478)
Q Consensus       179 ~d~~~a~~  186 (478)
                      +++..++.
T Consensus       235 ~~v~~~l~  242 (363)
T PRK14961        235 KNVTDMLG  242 (363)
T ss_pred             HHHHHHHC
Confidence            87766654

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.12  E-value=0.00047  Score=64.36  Aligned_cols=37  Identities=22%  Similarity=0.522  Sum_probs=30.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      +..+++.||||+||||+|+.+|+.++.+++.+.  +++.
T Consensus         6 ~mrIvl~G~PGsGK~T~a~~La~~~g~~~is~g--dllr   42 (229)
T PTZ00088          6 PLKIVLFGAPGVGKGTFAEILSKKENLKHINMG--NILR   42 (229)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhCCcEEECC--hHHH
Confidence            445999999999999999999999987766544  4543

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.11  E-value=0.0093  Score=59.75  Aligned_cols=129  Identities=16%  Similarity=0.240  Sum_probs=84.9

Q ss_pred             hhhhHHHHhhhhcCC-----CeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------eCHhH
Q psy450           31 HLNDIVKINLKKYNL-----DIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------IRKQI   99 (478)
Q Consensus        31 ~~~~if~~~a~~~~p-----~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------ld~al   99 (478)
                      .++.+++ .+. ..|     -|++|||+|.+-. ...+.++..++..             ....++|++      +.+++
T Consensus       101 ~~~~l~~-~~~-~~p~~~~~~vviidea~~l~~-~~~~~Ll~~le~~-------------~~~~~lIl~~~~~~~l~~~l  164 (355)
T TIGR02397       101 DIREILD-NVK-YAPSSGKYKVYIIDEVHMLSK-SAFNALLKTLEEP-------------PEHVVFILATTEPHKIPATI  164 (355)
T ss_pred             HHHHHHH-HHh-cCcccCCceEEEEeChhhcCH-HHHHHHHHHHhCC-------------ccceeEEEEeCCHHHHHHHH
Confidence            5677776 443 233     5999999998854 3456777777631             122233333      67889


Q ss_pred             HhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHH
Q psy450          100 QKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKE  179 (478)
Q Consensus       100 ~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~  179 (478)
                      ++|+ ..++|+.|+.++..++++.+++..+.  ..+.+.+..++..+.| +...+.+.+..+...       ....++.+
T Consensus       165 ~sr~-~~~~~~~~~~~~l~~~l~~~~~~~g~--~i~~~a~~~l~~~~~g-~~~~a~~~lekl~~~-------~~~~it~~  233 (355)
T TIGR02397       165 LSRC-QRFDFKRIPLEDIVERLKKILDKEGI--KIEDEALELIARAADG-SLRDALSLLDQLISF-------GNGNITYE  233 (355)
T ss_pred             Hhhe-eEEEcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCC-ChHHHHHHHHHHHhh-------cCCCCCHH
Confidence            9999 57899999999999999999977633  3444555788887765 445555555444332       12348888


Q ss_pred             HHHHHHH
Q psy450          180 DFQQIYD  186 (478)
Q Consensus       180 d~~~a~~  186 (478)
                      ++..+..
T Consensus       234 ~v~~~~~  240 (355)
T TIGR02397       234 DVNELLG  240 (355)
T ss_pred             HHHHHhC
Confidence            8866554

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.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.11  E-value=0.0054  Score=56.71  Aligned_cols=22  Identities=36%  Similarity=0.563  Sum_probs=20.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      +.++|+||.|+|||++.+.++.
T Consensus        30 ~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            5689999999999999999983

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

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=97.11  E-value=0.003  Score=56.16  Aligned_cols=33  Identities=21%  Similarity=0.346  Sum_probs=28.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEech
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGP  268 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~  268 (478)
                      .+++.|+||+|||++|..++..++.+++++...
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~~~~~~iat~   35 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSGLQVLYIATA   35 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcCCCcEeCcCC
Confidence            489999999999999999999988777776643

>PRK10867 signal recognition particle protein; Provisional

Probab=97.11  E-value=0.039  Score=56.41  Aligned_cols=72  Identities=21%  Similarity=0.249  Sum_probs=46.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEechhhhhh----------------h---hc-chHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKGPELLNK----------------Y---IG-QSEENIRNVFLKA  289 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~~~l~~~----------------~---~g-~~~~~~~~~~~~a  289 (478)
                      |.-++++|++|+||||++..+|..+    |..+..+++..+...                +   .+ .........+..+
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~a  179 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEEA  179 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHHHHHH
Confidence            6678999999999999888777654    566777766422211                0   01 1223334555666


Q ss_pred             HhCCCeEEEEcCCccc
Q psy450          290 RSAAPCVVFFDELDSL  305 (478)
Q Consensus       290 ~~~~p~il~iDeid~l  305 (478)
                      +.....+|++|=.-.+
T Consensus       180 ~~~~~DvVIIDTaGrl  195 (433)
T PRK10867        180 KENGYDVVIVDTAGRL  195 (433)
T ss_pred             HhcCCCEEEEeCCCCc
Confidence            6666789999976544

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=97.11  E-value=0.00067  Score=66.41  Aligned_cols=69  Identities=19%  Similarity=0.305  Sum_probs=46.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEe-chhhhhh------hhcchHHHHHHHHHHhHhCCCeEEEEcC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVK-GPELLNK------YIGQSEENIRNVFLKARSAAPCVVFFDE  301 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~-~~~l~~~------~~g~~~~~~~~~~~~a~~~~p~il~iDe  301 (478)
                      ..++++.|++|+||||+++++....     +..++.+. ..++.-.      ......-....++..+...+|..|++.|
T Consensus       144 ~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiEd~~El~~~~~n~v~l~~~~~~~~~~lv~~aLR~~PD~IivGE  223 (323)
T PRK13833        144 RLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEIQCAAENAVALHTSDTVDMARLLKSTMRLRPDRIIVGE  223 (323)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEecCCcccccCCCCEEEeccCCCcCHHHHHHHHhCCCCCEEEEee
Confidence            4569999999999999999998876     23344433 2222110      0011122366778888889999999999


Q ss_pred             C
Q psy450          302 L  302 (478)
Q Consensus       302 i  302 (478)
                      +
T Consensus       224 i  224 (323)
T PRK13833        224 V  224 (323)
T ss_pred             c
Confidence            6

>PF13245 AAA_19: Part of AAA domain

Probab=97.10  E-value=0.00092  Score=50.77  Aligned_cols=31  Identities=35%  Similarity=0.570  Sum_probs=21.6

Q ss_pred             EEEeCCCCChHH-HHHHHHHHHh------CCcEEEEec
Q psy450          237 LLLYGPPGTGKT-LIAKAVATEC------RMNFLAVKG  267 (478)
Q Consensus       237 iLl~Gp~GtGKT-~la~~la~~~------~~~~~~v~~  267 (478)
                      +++.|||||||| ++++.++...      +..++.+..
T Consensus        13 ~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~   50 (76)
T PF13245_consen   13 FVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAP   50 (76)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECC
Confidence            566999999999 5666666555      445665554

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=97.10  E-value=0.00057  Score=60.87  Aligned_cols=31  Identities=32%  Similarity=0.493  Sum_probs=28.1

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      .++|+|++|+|||++++.+|+.+|.+++..+
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~lg~~~~d~D   34 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQALGYRFVDTD   34 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEEcc
Confidence            5899999999999999999999999987654

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=97.09  E-value=0.00055  Score=61.10  Aligned_cols=34  Identities=29%  Similarity=0.605  Sum_probs=29.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~  267 (478)
                      ...|+|.|++|+|||++++.+++.++.+++..+.
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D~   37 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQ   37 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcCCcEEECCc
Confidence            4469999999999999999999999998876653

>PRK13946 shikimate kinase; Provisional

Probab=97.09  E-value=0.00048  Score=62.24  Aligned_cols=33  Identities=27%  Similarity=0.487  Sum_probs=30.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      +..|++.|.+|||||++++.+|+.+|.+++..+
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D   42 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLGLPFLDAD   42 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCCCeECcC
Confidence            567999999999999999999999999987665

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=97.09  E-value=0.0038  Score=58.94  Aligned_cols=37  Identities=24%  Similarity=0.290  Sum_probs=28.4

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEec
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKG  267 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~  267 (478)
                      |.+ ..-+++.|+||+|||+++..++...    +.++++++.
T Consensus         9 Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~   50 (242)
T cd00984           9 GLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSL   50 (242)
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeC
Confidence            444 4468899999999999998886654    778877774

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=97.08  E-value=0.00052  Score=67.55  Aligned_cols=21  Identities=38%  Similarity=0.640  Sum_probs=19.0

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      +-|.||+||||||+.|+||.-
T Consensus        34 ~~lLGPSGcGKTTlLR~IAGf   54 (352)
T COG3842          34 VTLLGPSGCGKTTLLRMIAGF   54 (352)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            559999999999999999973

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=97.07  E-value=0.0007  Score=66.26  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=20.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -+.|.||+||||||+.+.||.-.
T Consensus        31 f~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          31 FVVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48899999999999999999743

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=97.06  E-value=0.0036  Score=67.88  Aligned_cols=115  Identities=23%  Similarity=0.304  Sum_probs=63.3

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHH---HhCCcEEEEechhhhhh----------------hhcchHHHHHHHHHHhH
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVAT---ECRMNFLAVKGPELLNK----------------YIGQSEENIRNVFLKAR  290 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~---~~~~~~~~v~~~~l~~~----------------~~g~~~~~~~~~~~~a~  290 (478)
                      |.+ ...++++||||||||+++..++.   ..|...++++..+-...                .....+..+..+-...+
T Consensus        56 Gip~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~~A~~lGvDl~~llv~~~~~~E~~l~~i~~lv~  135 (790)
T PRK09519         56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIR  135 (790)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHHHHHHcCCChhHeEEecCCCHHHHHHHHHHHhh
Confidence            455 55678999999999999976543   33666777765432210                01112222222222234


Q ss_pred             hCCCeEEEEcCCccccCCCCCCC---C-CchhHHHHHHHHHHhhcCCCCCCCeEEEEEc
Q psy450          291 SAAPCVVFFDELDSLAPRRGQED---Q-SSGVMDRVVSQLLAEMDGVHTSQDVFILGAT  345 (478)
Q Consensus       291 ~~~p~il~iDeid~l~~~~~~~~---~-~~~~~~~~~~~ll~~l~~~~~~~~v~vI~tt  345 (478)
                      ...+.+|+||-+..+.++..-.+   . ..+...+.+.+++..+.......++.+|.|-
T Consensus       136 ~~~~~LVVIDSI~aL~~r~E~~g~~g~~~~~~q~rl~~q~L~~L~~~l~~~nvtvi~TN  194 (790)
T PRK09519        136 SGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFIN  194 (790)
T ss_pred             cCCCeEEEEcchhhhcchhhccCCCCcccHHHHHHHHHHHHHHHHHHHHhCCCEEEEEe
Confidence            56789999999999986321111   1 1112233444555544444445566666653

>PRK14528 adenylate kinase; Provisional

Probab=97.06  E-value=0.00059  Score=61.73  Aligned_cols=34  Identities=26%  Similarity=0.566  Sum_probs=28.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      .+++.||||+|||++++.+++.++.+.+.  ..++.
T Consensus         3 ~i~i~G~pGsGKtt~a~~la~~~~~~~is--~~~~l   36 (186)
T PRK14528          3 NIIFMGPPGAGKGTQAKILCERLSIPQIS--TGDIL   36 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeee--CCHHH
Confidence            48999999999999999999999877655  34443

>PRK10436 hypothetical protein; Provisional

Probab=97.04  E-value=0.0022  Score=66.13  Aligned_cols=93  Identities=19%  Similarity=0.270  Sum_probs=59.9

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEec-hhhhhhh-----
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR---MNFLAVKG-PELLNKY-----  274 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~~-~~l~~~~-----  274 (478)
                      .++++++-.+...+.+.+.+..+       ...+|++||+|+||||++.++...++   .+++.+.- .++.-..     
T Consensus       195 ~~L~~LG~~~~~~~~l~~~~~~~-------~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDPvE~~l~gi~Q~~  267 (462)
T PRK10436        195 LDLETLGMTPAQLAQFRQALQQP-------QGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEIPLAGINQTQ  267 (462)
T ss_pred             CCHHHcCcCHHHHHHHHHHHHhc-------CCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCCccccCCCcceEe
Confidence            46677777777777777665433       23488999999999999888776663   33444331 1221110     


Q ss_pred             hc-chHHHHHHHHHHhHhCCCeEEEEcCCc
Q psy450          275 IG-QSEENIRNVFLKARSAAPCVVFFDELD  303 (478)
Q Consensus       275 ~g-~~~~~~~~~~~~a~~~~p~il~iDeid  303 (478)
                      ++ .........+..+....|.+|++.|+-
T Consensus       268 v~~~~g~~f~~~lr~~LR~dPDvI~vGEIR  297 (462)
T PRK10436        268 IHPKAGLTFQRVLRALLRQDPDVIMVGEIR  297 (462)
T ss_pred             eCCccCcCHHHHHHHHhcCCCCEEEECCCC
Confidence            11 112235667777788999999999974

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.04  E-value=0.0083  Score=67.96  Aligned_cols=33  Identities=24%  Similarity=0.151  Sum_probs=26.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~  267 (478)
                      .+-++++||+|.|||+++...+...+ ++..++.
T Consensus        32 ~~~~~v~apaG~GKTtl~~~~~~~~~-~~~w~~l   64 (903)
T PRK04841         32 YRLVLVTSPAGYGKTTLISQWAAGKN-NLGWYSL   64 (903)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhCC-CeEEEec
Confidence            34589999999999999999887766 6555543

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=97.04  E-value=0.0009  Score=65.68  Aligned_cols=70  Identities=19%  Similarity=0.339  Sum_probs=46.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEe-chhhhh------hhhcchHHHHHHHHHHhHhCCCeEEEEcC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVK-GPELLN------KYIGQSEENIRNVFLKARSAAPCVVFFDE  301 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~-~~~l~~------~~~g~~~~~~~~~~~~a~~~~p~il~iDe  301 (478)
                      ..++++.|++|+|||+++++++...     ...++.+. ..++.-      .+.....-...+++..+...+|..|++.|
T Consensus       148 ~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~El~~~~~~~v~~~~~~~~~~~~ll~~aLR~~PD~IivGE  227 (319)
T PRK13894        148 HRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEIQCAAENYVQYHTSIDVNMTALLKTTLRMRPDRILVGE  227 (319)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCCccccCCCCEEEEecCCCCCHHHHHHHHhcCCCCEEEEec
Confidence            4579999999999999999999764     12333322 122210      00111122466788888889999999999


Q ss_pred             Cc
Q psy450          302 LD  303 (478)
Q Consensus       302 id  303 (478)
                      +-
T Consensus       228 iR  229 (319)
T PRK13894        228 VR  229 (319)
T ss_pred             cC
Confidence            63

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.04  E-value=0.0047  Score=59.03  Aligned_cols=37  Identities=27%  Similarity=0.283  Sum_probs=27.9

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      |.+ ...++++||||||||+++..++...   |.++++++.
T Consensus        32 Gip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~   72 (259)
T TIGR03878        32 GIPAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTV   72 (259)
T ss_pred             CeECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEe
Confidence            444 5568899999999999999886543   556666664

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

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

Probab=97.04  E-value=0.00086  Score=60.05  Aligned_cols=34  Identities=32%  Similarity=0.653  Sum_probs=26.7

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      .+++.||||+||||+|+.|++.++  +.+++..++.
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~--i~hlstgd~~   35 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLG--LPHLDTGDIL   35 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC--CcEEcHhHHh
Confidence            489999999999999999999954  4555544443

>PRK09087 hypothetical protein; Validated

Probab=97.04  E-value=0.0081  Score=56.07  Aligned_cols=122  Identities=10%  Similarity=0.027  Sum_probs=81.7

Q ss_pred             CeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe----------eCHhHHhccc--cEEEeCCCC
Q psy450           46 DIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----------IRKQIQKLFL--KTINVLPLT  113 (478)
Q Consensus        46 ~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----------ld~al~rRf~--~~i~~~~P~  113 (478)
                      ..|+||+++.+....  ..++..++.+            ...+..+|++          ..|++++||.  ..+++..|+
T Consensus        89 ~~l~iDDi~~~~~~~--~~lf~l~n~~------------~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd  154 (226)
T PRK09087         89 GPVLIEDIDAGGFDE--TGLFHLINSV------------RQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPD  154 (226)
T ss_pred             CeEEEECCCCCCCCH--HHHHHHHHHH------------HhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCC
Confidence            578999999874332  3344445532            2334455555          4788999996  789999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          114 EPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       114 ~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      .++|.+|++..+...  .+..+.+.++.|+++.+| +...+..++..-...+..    .+.++|..-+.++++.+
T Consensus       155 ~e~~~~iL~~~~~~~--~~~l~~ev~~~La~~~~r-~~~~l~~~l~~L~~~~~~----~~~~it~~~~~~~l~~~  222 (226)
T PRK09087        155 DALLSQVIFKLFADR--QLYVDPHVVYYLVSRMER-SLFAAQTIVDRLDRLALE----RKSRITRALAAEVLNEM  222 (226)
T ss_pred             HHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHHH----hCCCCCHHHHHHHHHhh
Confidence            999999999999876  455667777999998773 223333333333333321    35678888777777654

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=97.03  E-value=0.0032  Score=62.29  Aligned_cols=37  Identities=19%  Similarity=0.264  Sum_probs=27.2

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---------CCcEEEEec
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---------RMNFLAVKG  267 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---------~~~~~~v~~  267 (478)
                      |.+ ..-..|+||||||||+++..++-..         +..+++++.
T Consensus       122 Gi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdT  168 (344)
T PLN03187        122 GIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDT  168 (344)
T ss_pred             CCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEc
Confidence            555 4456799999999999999886322         246777775

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.02  E-value=0.012  Score=61.35  Aligned_cols=135  Identities=14%  Similarity=0.151  Sum_probs=92.0

Q ss_pred             chhhhhHHHHhhhhc----CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------eCHh
Q psy450           29 YHHLNDIVKINLKKY----NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------IRKQ   98 (478)
Q Consensus        29 ~~~~~~if~~~a~~~----~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------ld~a   98 (478)
                      -..++.+.+ .+...    ..-|++|||+|.+.. ...+.|+..++.             .....++|++      +.++
T Consensus       110 vd~Ir~iie-~a~~~P~~~~~KVvIIDEa~~Ls~-~a~naLLk~LEe-------------pp~~~vfI~aTte~~kI~~t  174 (507)
T PRK06645        110 VDDIRRIIE-SAEYKPLQGKHKIFIIDEVHMLSK-GAFNALLKTLEE-------------PPPHIIFIFATTEVQKIPAT  174 (507)
T ss_pred             HHHHHHHHH-HHHhccccCCcEEEEEEChhhcCH-HHHHHHHHHHhh-------------cCCCEEEEEEeCChHHhhHH
Confidence            346677775 55321    235999999998854 346777777773             1223344444      8889


Q ss_pred             HHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCH
Q psy450           99 IQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQK  178 (478)
Q Consensus        99 l~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~  178 (478)
                      +.+|. ..++|..++.++...+++..++..  ....+.+.++.++..++| +..+..++++.+.....    .....|+.
T Consensus       175 I~SRc-~~~ef~~ls~~el~~~L~~i~~~e--gi~ie~eAL~~Ia~~s~G-slR~al~~Ldkai~~~~----~~~~~It~  246 (507)
T PRK06645        175 IISRC-QRYDLRRLSFEEIFKLLEYITKQE--NLKTDIEALRIIAYKSEG-SARDAVSILDQAASMSA----KSDNIISP  246 (507)
T ss_pred             HHhcc-eEEEccCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHhhc----cCCCCcCH
Confidence            99999 679999999999999999999776  334455555889988776 77788777777654321    11235777


Q ss_pred             HHHHHHHH
Q psy450          179 EDFQQIYD  186 (478)
Q Consensus       179 ~d~~~a~~  186 (478)
                      +++...+.
T Consensus       247 ~~V~~llg  254 (507)
T PRK06645        247 QVINQMLG  254 (507)
T ss_pred             HHHHHHHC
Confidence            77665544

>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []

Probab=97.02  E-value=0.0086  Score=52.00  Aligned_cols=58  Identities=22%  Similarity=0.215  Sum_probs=40.2

Q ss_pred             eCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcC
Q psy450          240 YGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDE  301 (478)
Q Consensus       240 ~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDe  301 (478)
                      .+.+||||||++.+|++-++- +-.+...++.++   ...+.+..+++.+......+++.|-
T Consensus         5 IAtiGCGKTTva~aL~~LFg~-wgHvQnDnI~~k---~~~~f~~~~l~~L~~~~~~vViaDR   62 (168)
T PF08303_consen    5 IATIGCGKTTVALALSNLFGE-WGHVQNDNITGK---RKPKFIKAVLELLAKDTHPVVIADR   62 (168)
T ss_pred             ecCCCcCHHHHHHHHHHHcCC-CCccccCCCCCC---CHHHHHHHHHHHHhhCCCCEEEEeC
Confidence            588999999999999999984 444555555433   3444555666666444556888885

Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.02  E-value=0.0025  Score=56.81  Aligned_cols=25  Identities=24%  Similarity=0.452  Sum_probs=22.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...+.+.||+|+|||++++.++...
T Consensus        28 G~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          28 GEKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC
Confidence            4458899999999999999999865

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.

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

Probab=97.01  E-value=0.00047  Score=60.03  Aligned_cols=30  Identities=27%  Similarity=0.490  Sum_probs=26.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      .+.++|.|||||||+++.++ ++|.+.++++
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~-~lg~~~i~l~   31 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR-ELGYKVIELN   31 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH-HhCCceeeHH
Confidence            37899999999999999999 8988876654

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

Probab=97.01  E-value=0.0012  Score=49.16  Aligned_cols=30  Identities=23%  Similarity=0.458  Sum_probs=23.7

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh-CCcEEEEe
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC-RMNFLAVK  266 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~-~~~~~~v~  266 (478)
                      +.+.|+||+|||++++.+++.+ +.++..++
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l~~~~~~~i~   32 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQLGGRSVVVLD   32 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCCEEEEe
Confidence            6789999999999999999986 23444443

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.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.01  E-value=0.0053  Score=62.11  Aligned_cols=107  Identities=7%  Similarity=0.033  Sum_probs=75.3

Q ss_pred             hhhhhHHHHhhhh----cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------eCHhH
Q psy450           30 HHLNDIVKINLKK----YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------IRKQI   99 (478)
Q Consensus        30 ~~~~~if~~~a~~----~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------ld~al   99 (478)
                      .++|.+++ .+..    ....|+||||+|.+...- .|.+|..|+.             .+.+.++|++      +.|.+
T Consensus       100 ~~iR~l~~-~~~~~p~~~~~kViiIDead~m~~~a-anaLLk~LEe-------------p~~~~~fIL~a~~~~~llpTI  164 (394)
T PRK07940        100 DEVRELVT-IAARRPSTGRWRIVVIEDADRLTERA-ANALLKAVEE-------------PPPRTVWLLCAPSPEDVLPTI  164 (394)
T ss_pred             HHHHHHHH-HHHhCcccCCcEEEEEechhhcCHHH-HHHHHHHhhc-------------CCCCCeEEEEECChHHChHHH
Confidence            35788887 6543    223599999999996554 5888888874             2334555555      89999


Q ss_pred             HhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHH
Q psy450          100 QKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVR  159 (478)
Q Consensus       100 ~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~  159 (478)
                      ++|. ..++|+.|+.++..+.|..   ..  .  .+.+..+.++..++|..+..+.-+..
T Consensus       165 rSRc-~~i~f~~~~~~~i~~~L~~---~~--~--~~~~~a~~la~~s~G~~~~A~~l~~~  216 (394)
T PRK07940        165 RSRC-RHVALRTPSVEAVAEVLVR---RD--G--VDPETARRAARASQGHIGRARRLATD  216 (394)
T ss_pred             HhhC-eEEECCCCCHHHHHHHHHH---hc--C--CCHHHHHHHHHHcCCCHHHHHHHhcC
Confidence            9999 7899999999997777653   21  1  12233478899999988876655443

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.00  E-value=0.00072  Score=61.06  Aligned_cols=34  Identities=21%  Similarity=0.434  Sum_probs=27.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      -+++.||||+||||+++.+++.+|...  ++..++.
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~~~g~~~--~~~g~~~   38 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVEKYGFTH--LSTGDLL   38 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcE--EeHHHHH
Confidence            478999999999999999999987654  4554444

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.

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.00  E-value=0.0037  Score=57.01  Aligned_cols=23  Identities=48%  Similarity=0.686  Sum_probs=18.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -+.+.||.|||||++|-+.|-++
T Consensus        21 ~v~~~G~AGTGKT~LA~a~Al~~   43 (205)
T PF02562_consen   21 LVIVNGPAGTGKTFLALAAALEL   43 (205)
T ss_dssp             EEEEE--TTSSTTHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Confidence            48899999999999999998655

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

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.00  E-value=0.0015  Score=61.90  Aligned_cols=68  Identities=22%  Similarity=0.418  Sum_probs=47.6

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCC----cEEEEe---------chhhh-hhhhcchHHHHHHHHHHhHhCCCeEEEEcCC
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRM----NFLAVK---------GPELL-NKYIGQSEENIRNVFLKARSAAPCVVFFDEL  302 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~----~~~~v~---------~~~l~-~~~~g~~~~~~~~~~~~a~~~~p~il~iDei  302 (478)
                      ||++||+|+||||...++-...+.    +.+.+.         ...++ ..-+|.........++.|....|+||++-|+
T Consensus       128 ILVTGpTGSGKSTTlAamId~iN~~~~~HIlTIEDPIE~vh~skkslI~QREvG~dT~sF~~aLraALReDPDVIlvGEm  207 (353)
T COG2805         128 ILVTGPTGSGKSTTLAAMIDYINKHKAKHILTIEDPIEYVHESKKSLINQREVGRDTLSFANALRAALREDPDVILVGEM  207 (353)
T ss_pred             EEEeCCCCCcHHHHHHHHHHHHhccCCcceEEecCchHhhhcchHhhhhHHHhcccHHHHHHHHHHHhhcCCCEEEEecc
Confidence            788899999999988888777743    333332         12222 2235666666777788888899999999886


Q ss_pred             cc
Q psy450          303 DS  304 (478)
Q Consensus       303 d~  304 (478)
                      -.
T Consensus       208 RD  209 (353)
T COG2805         208 RD  209 (353)
T ss_pred             cc
Confidence            43

>PLN02200 adenylate kinase family protein

Probab=97.00  E-value=0.00075  Score=63.37  Aligned_cols=38  Identities=18%  Similarity=0.344  Sum_probs=31.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      +..+++.|+||+||||+|+.+++.+|..  +++..+++..
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~~~g~~--his~gdllR~   80 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVETFGFK--HLSAGDLLRR   80 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCe--EEEccHHHHH
Confidence            5568999999999999999999999865  5666666543

>PRK02496 adk adenylate kinase; Provisional

Probab=96.99  E-value=0.00065  Score=61.32  Aligned_cols=30  Identities=30%  Similarity=0.579  Sum_probs=26.1

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      .+++.||||+|||++++.+++.++.+.+..
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~~~~~i~~   32 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHLHIPHIST   32 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEEh
Confidence            389999999999999999999998765543

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.99  E-value=0.0017  Score=63.70  Aligned_cols=70  Identities=20%  Similarity=0.402  Sum_probs=45.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC--cEEEEec-hhhhhh---h---------hcchHHHHHHHHHHhHhCCCeEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM--NFLAVKG-PELLNK---Y---------IGQSEENIRNVFLKARSAAPCVVF  298 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~--~~~~v~~-~~l~~~---~---------~g~~~~~~~~~~~~a~~~~p~il~  298 (478)
                      ..++++.||+|+||||+++++...+..  ..+.+.. .++.-.   .         .+...-.+.+++..+....|.+|+
T Consensus       144 ~~~ili~G~tGsGKTTll~al~~~~~~~~~iv~ied~~El~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~Lr~~pd~ii  223 (308)
T TIGR02788       144 RKNIIISGGTGSGKTTFLKSLVDEIPKDERIITIEDTREIFLPHPNYVHLFYSKGGQGLAKVTPKDLLQSCLRMRPDRII  223 (308)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHccCCccccEEEEcCccccCCCCCCEEEEEecCCCCCcCccCHHHHHHHHhcCCCCeEE
Confidence            567999999999999999999987632  2223221 111100   0         011123356677778888999999


Q ss_pred             EcCCc
Q psy450          299 FDELD  303 (478)
Q Consensus       299 iDeid  303 (478)
                      +||+-
T Consensus       224 ~gE~r  228 (308)
T TIGR02788       224 LGELR  228 (308)
T ss_pred             EeccC
Confidence            99964

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>TIGR00959 ffh signal recognition particle protein

Probab=96.99  E-value=0.056  Score=55.20  Aligned_cols=72  Identities=26%  Similarity=0.206  Sum_probs=46.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEechhhhhh-------h------------hcch-HHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKGPELLNK-------Y------------IGQS-EENIRNVFLKA  289 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~~~l~~~-------~------------~g~~-~~~~~~~~~~a  289 (478)
                      |.-+++.|++|+||||++..+|..+    |.++..+++..+...       +            .+.. .......+..+
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~~~  178 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALEYA  178 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHHHHH
Confidence            6678999999999999988887664    556777776432210       0            0111 22334556666


Q ss_pred             HhCCCeEEEEcCCccc
Q psy450          290 RSAAPCVVFFDELDSL  305 (478)
Q Consensus       290 ~~~~p~il~iDeid~l  305 (478)
                      ......+|++|-.-.+
T Consensus       179 ~~~~~DvVIIDTaGr~  194 (428)
T TIGR00959       179 KENGFDVVIVDTAGRL  194 (428)
T ss_pred             HhcCCCEEEEeCCCcc
Confidence            6666779999975443

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.

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.99  E-value=0.011  Score=54.93  Aligned_cols=122  Identities=11%  Similarity=0.164  Sum_probs=79.6

Q ss_pred             CCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe------e---CHhHHhccc--cEEEeCC
Q psy450           44 NLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------I---RKQIQKLFL--KTINVLP  111 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------l---d~al~rRf~--~~i~~~~  111 (478)
                      .+.+|+|||+|.+.... ....+...++...           ..+..+++.+      +   ++.+.+||.  ..+.++.
T Consensus        90 ~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~-----------~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~  158 (226)
T TIGR03420        90 QADLVCLDDVEAIAGQPEWQEALFHLYNRVR-----------EAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPP  158 (226)
T ss_pred             cCCEEEEeChhhhcCChHHHHHHHHHHHHHH-----------HcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCC
Confidence            35699999999987543 1333443344211           1223344433      2   277887874  7899999


Q ss_pred             CCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHH
Q psy450          112 LTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQ  183 (478)
Q Consensus       112 P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~  183 (478)
                      |+.+++..+++.+....  ....+.+.++.|+.. -+-+..++..+++.+...+..    .+..|+.+...+
T Consensus       159 l~~~e~~~~l~~~~~~~--~~~~~~~~l~~L~~~-~~gn~r~L~~~l~~~~~~~~~----~~~~i~~~~~~~  223 (226)
T TIGR03420       159 LSDEEKIAALQSRAARR--GLQLPDEVADYLLRH-GSRDMGSLMALLDALDRASLA----AKRKITIPFVKE  223 (226)
T ss_pred             CCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHh-ccCCHHHHHHHHHHHHHHHHH----hCCCCCHHHHHH
Confidence            99999999999988765  344556666888885 667888899988886654432    234576655443

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.

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

Probab=96.99  E-value=0.0073  Score=53.80  Aligned_cols=32  Identities=34%  Similarity=0.368  Sum_probs=26.5

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh---CCcEEEEech
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP  268 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~  268 (478)
                      +++.|+||+|||+++..++..+   +..+..+++.
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D   37 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAAD   37 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Confidence            6889999999999999998776   5667777654

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.

>PRK06620 hypothetical protein; Validated

Probab=96.98  E-value=0.015  Score=53.82  Aligned_cols=117  Identities=10%  Similarity=0.160  Sum_probs=74.8

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhccc--cEEEeCCC
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLFL--KTINVLPL  112 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf~--~~i~~~~P  112 (478)
                      +.++|+|||+|.+-. .   .++..++.+            ...+..+|++         + |++++|+.  ..+.+..|
T Consensus        85 ~~d~lliDdi~~~~~-~---~lf~l~N~~------------~e~g~~ilits~~~p~~l~l-~~L~SRl~~gl~~~l~~p  147 (214)
T PRK06620         85 KYNAFIIEDIENWQE-P---ALLHIFNII------------NEKQKYLLLTSSDKSRNFTL-PDLSSRIKSVLSILLNSP  147 (214)
T ss_pred             cCCEEEEeccccchH-H---HHHHHHHHH------------HhcCCEEEEEcCCCccccch-HHHHHHHhCCceEeeCCC
Confidence            457999999995421 1   223333322            1233455555         6 88999995  26999999


Q ss_pred             CHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHH
Q psy450          113 TEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQI  184 (478)
Q Consensus       113 ~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a  184 (478)
                      |.+.+.++++......  .+..+.+.++.|+...+| +...+..++......+..    ...+||...+.++
T Consensus       148 d~~~~~~~l~k~~~~~--~l~l~~ev~~~L~~~~~~-d~r~l~~~l~~l~~~~~~----~~~~it~~~~~~~  212 (214)
T PRK06620        148 DDELIKILIFKHFSIS--SVTISRQIIDFLLVNLPR-EYSKIIEILENINYFALI----SKRKITISLVKEV  212 (214)
T ss_pred             CHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHccC-CHHHHHHHHHHHHHHHHH----cCCCCCHHHHHHH
Confidence            9999999999998765  455666677999998763 445565555553222221    2356776665544

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.97  E-value=0.0027  Score=62.64  Aligned_cols=39  Identities=26%  Similarity=0.367  Sum_probs=29.2

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---------CCcEEEEechh
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---------RMNFLAVKGPE  269 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---------~~~~~~v~~~~  269 (478)
                      |.+ +.-++++||||||||+++..++...         +..+++++..+
T Consensus        98 Gi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~  146 (317)
T PRK04301         98 GIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEG  146 (317)
T ss_pred             CccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCC
Confidence            444 5557899999999999999998653         33677777543

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.97  E-value=0.0024  Score=55.92  Aligned_cols=71  Identities=25%  Similarity=0.393  Sum_probs=42.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc--EEEEechhhh-------hhhhc----ch-HHHHHHHHHHhHhCCCeEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN--FLAVKGPELL-------NKYIG----QS-EENIRNVFLKARSAAPCVVFF  299 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~--~~~v~~~~l~-------~~~~g----~~-~~~~~~~~~~a~~~~p~il~i  299 (478)
                      ...+.|.||+|+|||+++++++..+...  -+.++...+.       ....+    .+ ....+-.+..+....|.++++
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~~~~~~G~i~~~~~~~~~~~~~~~~~~i~~~~qlS~G~~~r~~l~~~l~~~~~i~il  104 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEELRRRIGYVPQLSGGQRQRVALARALLLNPDLLLL  104 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCccEEEECCEEcccCCHHHHHhceEEEeeCCHHHHHHHHHHHHHhcCCCEEEE
Confidence            3468899999999999999999866321  1233322111       01011    11 122233355555667889999


Q ss_pred             cCCcc
Q psy450          300 DELDS  304 (478)
Q Consensus       300 Deid~  304 (478)
                      ||...
T Consensus       105 DEp~~  109 (157)
T cd00267         105 DEPTS  109 (157)
T ss_pred             eCCCc
Confidence            99654

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.

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=96.97  E-value=0.0054  Score=56.25  Aligned_cols=22  Identities=27%  Similarity=0.413  Sum_probs=19.8

Q ss_pred             ceEEEeCCCCChHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .-++|+||.|+|||++++.++.
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            3589999999999999999983

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=96.96  E-value=0.0022  Score=57.22  Aligned_cols=25  Identities=28%  Similarity=0.539  Sum_probs=21.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...+.|.||+|+|||++++.++...
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc
Confidence            3458899999999999999999865

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

>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=96.96  E-value=0.032  Score=56.01  Aligned_cols=34  Identities=24%  Similarity=0.503  Sum_probs=25.9

Q ss_pred             eEEEeCCCCChHHHHH--HHHHHHhCCcEEEEechhhh
Q psy450          236 GLLLYGPPGTGKTLIA--KAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la--~~la~~~~~~~~~v~~~~l~  271 (478)
                      -|+++||.|+||+.++  +++..  ..++++++|..+.
T Consensus        19 FIvV~GPrGSGK~elV~d~~L~~--r~~vL~IDC~~i~   54 (431)
T PF10443_consen   19 FIVVQGPRGSGKRELVMDHVLKD--RKNVLVIDCDQIV   54 (431)
T ss_pred             EEEEECCCCCCccHHHHHHHHhC--CCCEEEEEChHhh
Confidence            3788999999999999  55544  3457888886664

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 [].

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.95  E-value=0.016  Score=59.35  Aligned_cols=36  Identities=22%  Similarity=0.292  Sum_probs=27.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPE  269 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~  269 (478)
                      +..++|.||+|+||||++..+|..+     +..+..++...
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~  261 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDT  261 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCc
Confidence            4568899999999999988887654     34666676654

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.94  E-value=0.021  Score=53.30  Aligned_cols=124  Identities=13%  Similarity=0.194  Sum_probs=81.8

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhcc--ccEEEeCCC
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLF--LKTINVLPL  112 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf--~~~i~~~~P  112 (478)
                      ...+|+|||+|.+.... ...++..++...           .....+++++         +.+.+.+||  ...++++.|
T Consensus        90 ~~~~liiDdi~~l~~~~-~~~L~~~~~~~~-----------~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl  157 (227)
T PRK08903         90 EAELYAVDDVERLDDAQ-QIALFNLFNRVR-----------AHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPL  157 (227)
T ss_pred             cCCEEEEeChhhcCchH-HHHHHHHHHHHH-----------HcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCC
Confidence            46899999999875433 333444444211           1222345554         456777787  469999999


Q ss_pred             CHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHH
Q psy450          113 TEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYD  186 (478)
Q Consensus       113 ~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~  186 (478)
                      +.+++..+++.+....  .+..+.+.++.|+.. -+-+..++..+++.-...+..    .+.+||.....+++.
T Consensus       158 ~~~~~~~~l~~~~~~~--~v~l~~~al~~L~~~-~~gn~~~l~~~l~~l~~~~~~----~~~~i~~~~~~~~l~  224 (227)
T PRK08903        158 SDADKIAALKAAAAER--GLQLADEVPDYLLTH-FRRDMPSLMALLDALDRYSLE----QKRPVTLPLLREMLA  224 (227)
T ss_pred             CHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHh-ccCCHHHHHHHHHHHHHHHHH----hCCCCCHHHHHHHHh
Confidence            9999999999888766  455666677889984 445677777777764443322    346788777666654

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=96.94  E-value=0.0026  Score=67.59  Aligned_cols=94  Identities=17%  Similarity=0.249  Sum_probs=58.7

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEech-hhhhh-----h
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR---MNFLAVKGP-ELLNK-----Y  274 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~~~-~l~~~-----~  274 (478)
                      .++++++-.+...+.+.+.+..+       ...+|++||+|+||||+..++.+.++   .+++.+.-+ ++.-.     .
T Consensus       293 ~~l~~lg~~~~~~~~l~~~~~~~-------~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~tiEdpvE~~~~~~~q~~  365 (564)
T TIGR02538       293 LDIDKLGFEPDQKALFLEAIHKP-------QGMVLVTGPTGSGKTVSLYTALNILNTEEVNISTAEDPVEINLPGINQVN  365 (564)
T ss_pred             CCHHHcCCCHHHHHHHHHHHHhc-------CCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEEecCCceecCCCceEEE
Confidence            34567776766666666655433       23478999999999999988877764   234433221 11100     0


Q ss_pred             hc-chHHHHHHHHHHhHhCCCeEEEEcCCcc
Q psy450          275 IG-QSEENIRNVFLKARSAAPCVVFFDELDS  304 (478)
Q Consensus       275 ~g-~~~~~~~~~~~~a~~~~p~il~iDeid~  304 (478)
                      ++ .........++.+....|.+|++.|+-.
T Consensus       366 v~~~~g~~~~~~l~~~LR~dPDvI~vGEiRd  396 (564)
T TIGR02538       366 VNPKIGLTFAAALRSFLRQDPDIIMVGEIRD  396 (564)
T ss_pred             eccccCCCHHHHHHHHhccCCCEEEeCCCCC
Confidence            11 1112356677778889999999999743

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>TIGR01351 adk adenylate kinases

Probab=96.94  E-value=0.00077  Score=62.29  Aligned_cols=34  Identities=38%  Similarity=0.680  Sum_probs=27.9

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      |++.||||+||||+|+.+|+.+|.+.+.  ..+++.
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g~~~is--~gdllr   35 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYGLPHIS--TGDLLR   35 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeee--hhHHHH
Confidence            7899999999999999999999876654  444443

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.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.93  E-value=0.0046  Score=59.46  Aligned_cols=34  Identities=18%  Similarity=0.186  Sum_probs=26.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~  267 (478)
                      ...+++.|+||+|||+++..++..+    +.++++++.
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~   67 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISL   67 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEc
Confidence            4458899999999999999887654    667777665

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.93  E-value=0.0061  Score=54.65  Aligned_cols=25  Identities=20%  Similarity=0.432  Sum_probs=22.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +..+.+.||+|+|||++++.++...
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccC
Confidence            4458899999999999999998865

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=96.93  E-value=0.0057  Score=57.22  Aligned_cols=34  Identities=29%  Similarity=0.277  Sum_probs=26.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      ...+++.|+||+|||+++-.++...   |.++++++.
T Consensus        64 Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSl  100 (237)
T PRK05973         64 GDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTL  100 (237)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEE
Confidence            4468899999999999998886644   777777764

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.92  E-value=0.007  Score=56.60  Aligned_cols=37  Identities=27%  Similarity=0.315  Sum_probs=27.2

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      |.+ ...+++.||||+|||+++..++...   +.+.++++.
T Consensus        16 Gi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~   56 (229)
T TIGR03881        16 GIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTT   56 (229)
T ss_pred             CCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEc
Confidence            444 5668999999999999998876432   556666664

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>PRK04040 adenylate kinase; Provisional

Probab=96.92  E-value=0.00096  Score=60.41  Aligned_cols=30  Identities=20%  Similarity=0.362  Sum_probs=25.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh--CCcEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC--RMNFL  263 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~--~~~~~  263 (478)
                      +..++++|+|||||||+++.+++.+  +.+++
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l~~~~~~~   33 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKLKEDYKIV   33 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHhccCCeEE
Confidence            4468999999999999999999999  55543

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.92  E-value=0.0034  Score=61.71  Aligned_cols=39  Identities=21%  Similarity=0.336  Sum_probs=29.3

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---------CCcEEEEechh
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---------RMNFLAVKGPE  269 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---------~~~~~~v~~~~  269 (478)
                      |.+ ..-++++||||+|||+++-.++...         +..+++++..+
T Consensus        91 Gi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~  139 (310)
T TIGR02236        91 GIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTEN  139 (310)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCC
Confidence            444 4557899999999999999998653         23677887544

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.92  E-value=0.0046  Score=55.84  Aligned_cols=19  Identities=26%  Similarity=0.504  Sum_probs=18.1

Q ss_pred             EEEeCCCCChHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVA  255 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la  255 (478)
                      ++|+||.|+|||++++.++
T Consensus         2 ~~ltG~N~~GKst~l~~i~   20 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVG   20 (185)
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            6899999999999999998

>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=96.92  E-value=0.0017  Score=56.62  Aligned_cols=35  Identities=34%  Similarity=0.591  Sum_probs=28.7

Q ss_pred             EeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhh
Q psy450          239 LYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYI  275 (478)
Q Consensus       239 l~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~  275 (478)
                      +.||||+|||++|+.||+.++.  .+++..+++....
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~--~~is~~~llr~~~   35 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGL--VHISVGDLLREEI   35 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTS--EEEEHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhcCc--ceechHHHHHHHH
Confidence            5899999999999999999975  5667777765544

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 ....

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.91  E-value=0.022  Score=54.76  Aligned_cols=35  Identities=26%  Similarity=0.336  Sum_probs=27.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEech
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP  268 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~  268 (478)
                      ++-+.|+||+|+||||++..+|..+   +..+..+++.
T Consensus        72 ~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D  109 (272)
T TIGR00064        72 PNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGD  109 (272)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCC
Confidence            5678899999999999999998766   5566666553

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.

>PRK05642 DNA replication initiation factor; Validated

Probab=96.91  E-value=0.013  Score=55.05  Aligned_cols=121  Identities=7%  Similarity=0.121  Sum_probs=80.6

Q ss_pred             CCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe----------eCHhHHhccc--cEEEeCC
Q psy450           45 LDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----------IRKQIQKLFL--KTINVLP  111 (478)
Q Consensus        45 p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----------ld~al~rRf~--~~i~~~~  111 (478)
                      ..+|+||+++.+.++. ....++.-++..            ...+..+|++          ..|.+++||.  ..+.+..
T Consensus        98 ~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~------------~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~  165 (234)
T PRK05642         98 YELVCLDDLDVIAGKADWEEALFHLFNRL------------RDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRG  165 (234)
T ss_pred             CCEEEEechhhhcCChHHHHHHHHHHHHH------------HhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCC
Confidence            4689999999987754 234455555532            2334556666          5899999995  6778899


Q ss_pred             CCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHH
Q psy450          112 LTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQI  184 (478)
Q Consensus       112 P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a  184 (478)
                      |+.++|.++++......  .+..+.+.+++|+...+ -+.+.+..++..-...+..    .+.+||..-+.++
T Consensus       166 ~~~e~~~~il~~ka~~~--~~~l~~ev~~~L~~~~~-~d~r~l~~~l~~l~~~~l~----~~~~it~~~~~~~  231 (234)
T PRK05642        166 LSDEDKLRALQLRASRR--GLHLTDEVGHFILTRGT-RSMSALFDLLERLDQASLQ----AQRKLTIPFLKET  231 (234)
T ss_pred             CCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHHH----cCCcCCHHHHHHH
Confidence            99999999999777555  34556667789998876 4556666655544433321    2456776544444

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

Probab=96.91  E-value=0.011  Score=56.78  Aligned_cols=132  Identities=14%  Similarity=0.121  Sum_probs=86.1

Q ss_pred             HHHHhhhhcCCCeEEEecccccccchh--hHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhcc
Q psy450           35 IVKINLKKYNLDIFKYDEVNYLCNVKY--VYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLF  103 (478)
Q Consensus        35 if~~~a~~~~p~ilfiDe~d~i~~~r~--~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf  103 (478)
                      +.. ..+..++-+|+|||++.++....  .-.+++.+=.+          +..-+-.++.+|         -|+-+.+||
T Consensus       137 ~~~-llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L----------~NeL~ipiV~vGt~~A~~al~~D~QLa~RF  205 (302)
T PF05621_consen  137 VLR-LLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFL----------GNELQIPIVGVGTREAYRALRTDPQLASRF  205 (302)
T ss_pred             HHH-HHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHH----------hhccCCCeEEeccHHHHHHhccCHHHHhcc
Confidence            344 56788899999999999754331  11112111111          112234566777         799999999


Q ss_pred             ccEEEeCCCC-HHHHHHHHHHHHhhcCCCCC---CChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHH
Q psy450          104 LKTINVLPLT-EPERRLLIQYQLDCLGGDYG---FDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKE  179 (478)
Q Consensus       104 ~~~i~~~~P~-~~~r~~il~~~~~~~~~~~~---~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~  179 (478)
                      + .+.+|... .++-..++..+-..++....   .+.++...|-..|+|..| ++..++..|+..|+..   +...|+.+
T Consensus       206 ~-~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG-~l~~ll~~aA~~AI~s---G~E~It~~  280 (302)
T PF05621_consen  206 E-PFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIG-ELSRLLNAAAIAAIRS---GEERITRE  280 (302)
T ss_pred             C-CccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchH-HHHHHHHHHHHHHHhc---CCceecHH
Confidence            4 56667664 44556677777766642222   234555778888999885 6889999999999865   67778877


Q ss_pred             HHH
Q psy450          180 DFQ  182 (478)
Q Consensus       180 d~~  182 (478)
                      .+.
T Consensus       281 ~l~  283 (302)
T PF05621_consen  281 ILD  283 (302)
T ss_pred             HHh
Confidence            664

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

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.89  E-value=0.0055  Score=54.94  Aligned_cols=23  Identities=52%  Similarity=0.806  Sum_probs=21.5

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhC
Q psy450          237 LLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      ++|+|+||+|||++|+-+|+++.
T Consensus         4 iIlTGyPgsGKTtfakeLak~L~   26 (261)
T COG4088           4 IILTGYPGSGKTTFAKELAKELR   26 (261)
T ss_pred             EEEecCCCCCchHHHHHHHHHHH
Confidence            78999999999999999999883

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.89  E-value=0.0016  Score=61.00  Aligned_cols=23  Identities=35%  Similarity=0.443  Sum_probs=20.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -+-+.||.|+|||||.+++..-+
T Consensus        32 ~~~iiGPNGaGKSTLlK~iLGll   54 (254)
T COG1121          32 ITALIGPNGAGKSTLLKAILGLL   54 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999998743

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.89  E-value=0.0034  Score=61.41  Aligned_cols=36  Identities=28%  Similarity=0.394  Sum_probs=27.4

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      .-+++.|+|||||||+|+.+++.+. .+..++...+.
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~~-~~~~l~~D~~r   38 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKNP-KAVNVNRDDLR   38 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHCC-CCEEEeccHHH
Confidence            3478899999999999999999983 33445544443

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=96.89  E-value=0.003  Score=57.78  Aligned_cols=40  Identities=20%  Similarity=0.405  Sum_probs=30.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh-CCcEEEEechhhhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC-RMNFLAVKGPELLNK  273 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~-~~~~~~v~~~~l~~~  273 (478)
                      |.-+++.|+||+|||+++..+...+ +..++.++..++...
T Consensus        15 P~~~i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~r~~   55 (199)
T PF06414_consen   15 PTLIIIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEFRQF   55 (199)
T ss_dssp             -EEEEEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGGGGG
T ss_pred             CEEEEEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHHHHh
Confidence            7789999999999999999999988 778888888766433

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=96.88  E-value=0.011  Score=54.10  Aligned_cols=20  Identities=35%  Similarity=0.576  Sum_probs=19.0

Q ss_pred             eEEEeCCCCChHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVA  255 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la  255 (478)
                      .++|+||.|+|||++.+.++
T Consensus        30 ~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          30 VLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             EEEEECCCCCChHHHHHHHH
Confidence            59999999999999999998

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.87  E-value=0.00097  Score=61.84  Aligned_cols=29  Identities=38%  Similarity=0.679  Sum_probs=25.9

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      |+++||||+|||++++.+|+.++...+.+
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~~~~~is~   31 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKYGIPHIST   31 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence            89999999999999999999998766553

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	478
3cf0_A	301	Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH		1e-56
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		3e-56
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		4e-56
2x8a_A	274	Human Nuclear Valosin Containing Protein Like (Nvl)		2e-55
3h4m_A	285	Aaa Atpase Domain Of The Proteasome- Activating Nuc		8e-45
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		2e-43
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		2e-43
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		2e-43
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		2e-43
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		1e-39
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		1e-35
1lv7_A	257	Crystal Structure Of The Aaa Domain Of Ftsh Length		4e-35
4b4t_I	437	Near-Atomic Resolution Structural Model Of The Yeas		6e-35
2ce7_A	476	Edta Treated Length = 476		7e-35
3kds_E	465	Apo-ftsh Crystal Structure Length = 465		3e-34
4b4t_M	434	Near-Atomic Resolution Structural Model Of The Yeas		3e-34
2qz4_A	262	Human Paraplegin, Aaa Domain In Complex With Adp Le		2e-33
2r62_A	268	Crystal Structure Of Helicobacter Pylori Atp Depend		3e-33
4b4t_L	437	Near-Atomic Resolution Structural Model Of The Yeas		4e-32
4b4t_H	467	Near-Atomic Resolution Structural Model Of The Yeas		3e-30
2rko_A	331	Crystal Structure Of The Vps4p-Dimer Length = 331		9e-30
2qp9_X	355	Crystal Structure Of S.Cerevisiae Vps4 Length = 355		1e-29
3eie_A	322	Crystal Structure Of S.Cerevisiae Vps4 In The So4-B		2e-29
3eih_A	340	Crystal Structure Of S.Cerevisiae Vps4 In The Prese		2e-29
3d8b_A	357	Crystal Structure Of Human Fidgetin-Like Protein 1		3e-29
2dhr_A	499	Whole Cytosolic Region Of Atp-Dependent Metalloprot		4e-29
4eiw_A	508	Whole Cytosolic Region Of Atp-Dependent Metalloprot		5e-29
1ixz_A	254	Crystal Structure Of The Ftsh Atpase Domain From Th		9e-29
1iy2_A	278	Crystal Structure Of The Ftsh Atpase Domain From Th		1e-28
1xwi_A	322	Crystal Structure Of Vps4b Length = 322		4e-27
2zam_A	444	Crystal Structure Of Mouse Skd1VPS4B APO-Form Lengt		1e-26
3vfd_A	389	Human Spastin Aaa Domain Length = 389		7e-25
3b9p_A	297	Spastin Length = 297		7e-25
3t15_A	293	Structure Of Green-Type Rubisco Activase From Tobac		9e-06
1um8_A	376	Crystal Structure Of Helicobacter Pylori Clpx Lengt		2e-04

>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP Length = 301

Iteration: 1
 Score =  216 bits (551), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 114/227 (50%), Positives = 156/227 (68%), Gaps = 10/227 (4%)
Query: 200 SVPNVSWEDIGGLSKLKAEI--LSTFRGVNRTSGLK-----RSGLLLYGPPGTGKTLIAK 252
            VP V+WEDIGGL  +K E+  L  +   +    LK       G+L YGPPG GKTL+AK
Sbjct: 8   EVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAK 67
Query: 253 AVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLA-PRRGQ 311
           A+A EC+ NF+++KGPELL  + G+SE N+R +F KAR AAPCV+FFDELDS+A  R G 
Sbjct: 68  AIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGN 127
Query: 312 EDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
                G  DRV++Q+L EMDG+ T ++VFI+GATNR D++DPAILRPGRLD+ +Y+ L +
Sbjct: 128 IGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 187
Query: 372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNA 418
           ++ S++ +LKA +RK  ++ DV L+ L     +  SGAD+  IC  A
Sbjct: 188 EK-SRVAILKANLRKSPVAKDVDLEFLA-KMTNGFSGADLTEICQRA 232

>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Length = 806

Iteration: 1
 Score =  215 bits (548), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 114/227 (50%), Positives = 156/227 (68%), Gaps = 10/227 (4%)
Query: 200 SVPNVSWEDIGGLSKLKAEI--LSTFRGVNRTSGLK-----RSGLLLYGPPGTGKTLIAK 252
            VP V+WEDIGGL  +K E+  L  +   +    LK       G+L YGPPG GKTL+AK
Sbjct: 470 EVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAK 529
Query: 253 AVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLA-PRRGQ 311
           A+A EC+ NF+++KGPELL  + G+SE N+R +F KAR AAPCV+FFDELDS+A  R G 
Sbjct: 530 AIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGN 589
Query: 312 EDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
                G  DRV++Q+L EMDG+ T ++VFI+GATNR D++DPAILRPGRLD+ +Y+ L +
Sbjct: 590 IGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 649
Query: 372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNA 418
           ++ S++ +LKA +RK  ++ DV L+ L     +  SGAD+  IC  A
Sbjct: 650 EK-SRVAILKANLRKSPVAKDVDLEFLA-KMTNGFSGADLTEICQRA 694

>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A Length = 816

Iteration: 1
 Score =  215 bits (548), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 114/227 (50%), Positives = 156/227 (68%), Gaps = 10/227 (4%)
Query: 200 SVPNVSWEDIGGLSKLKAEI--LSTFRGVNRTSGLK-----RSGLLLYGPPGTGKTLIAK 252
            VP V+WEDIGGL  +K E+  L  +   +    LK       G+L YGPPG GKTL+AK
Sbjct: 470 EVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAK 529
Query: 253 AVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLA-PRRGQ 311
           A+A EC+ NF+++KGPELL  + G+SE N+R +F KAR AAPCV+FFDELDS+A  R G 
Sbjct: 530 AIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGN 589
Query: 312 EDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
                G  DRV++Q+L EMDG+ T ++VFI+GATNR D++DPAILRPGRLD+ +Y+ L +
Sbjct: 590 IGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 649
Query: 372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNA 418
           ++ S++ +LKA +RK  ++ DV L+ L     +  SGAD+  IC  A
Sbjct: 650 EK-SRVAILKANLRKSPVAKDVDLEFLA-KMTNGFSGADLTEICQRA 694

>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C- Terminal Aaa-Atpase Domain Length = 274

Iteration: 1
 Score =  213 bits (541), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 113/236 (47%), Positives = 158/236 (66%), Gaps = 12/236 (5%)
Query: 200 SVPNVSWEDIGGLSKLKAE----ILSTFRGVNRTSGL---KRSGLLLYGPPGTGKTLIAK 252
           +VPNV+W DIG L  ++ E    IL+  R  ++   L     +G+LL GPPG GKTL+AK
Sbjct: 3   TVPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAK 62
Query: 253 AVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE 312
           AVA E  +NF++VKGPELLN Y+G+SE  +R VF +A+++APCV+FFDE+D+L PRR   
Sbjct: 63  AVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRR--S 120
Query: 313 DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL--Y 370
           D+ +G   RVV+QLL EMDG+   Q VFI+ ATNR D++DPAILRPGRLDK+L+VGL   
Sbjct: 121 DRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPP 180
Query: 371 EDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQM-SGADIYSICSNAWTRAIRR 425
            DR++ L  +     K  L  DV+L+++         +GAD+ ++   A   A+R+
Sbjct: 181 ADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQ 236

>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating Nucleotidase Length = 285

Iteration: 1
 Score =  177 bits (450), Expect = 8e-45,   Method: Compositional matrix adjust.
 Identities = 107/259 (41%), Positives = 150/259 (57%), Gaps = 24/259 (9%)
Query: 202 PNVSWEDIGGLSKLKAEILSTFR------GVNRTSGLKR-SGLLLYGPPGTGKTLIAKAV 254
           PNV +EDIGGL K   EI            +    G++   G+LLYGPPGTGKTL+AKAV
Sbjct: 12  PNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAV 71
Query: 255 ATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ 314
           ATE    F+ V G EL+ K+IG+    ++++F  A+  AP ++F DE+D++A +R   D 
Sbjct: 72  ATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKR--TDA 129
Query: 315 SSG---VMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
            +G    + R + QLLAEMDG     DV I+GATNR D+LDPAILRPGR D+ + V   +
Sbjct: 130 LTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPD 189
Query: 372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAP 431
           ++  +L +LK   RK  L++DV+L+  +        GA++ +IC+ A   AIR +     
Sbjct: 190 EK-GRLEILKIHTRKMNLAEDVNLEE-IAKMTEGCVGAELKAICTEAGMNAIRELRDY-- 245
Query: 432 QVKSAPVIVTMDDFLGACS 450
                   VTMDDF  A  
Sbjct: 246 --------VTMDDFRKAVE 256

>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  173 bits (439), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 107/277 (38%), Positives = 158/277 (57%), Gaps = 19/277 (6%)
Query: 200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRS-------GLLLYGPPGTGKTLIAK 252
           S+  V ++DIGG  K  A+I        R   L ++       G+LLYGPPGTGKTLIA+
Sbjct: 197 SLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIAR 256
Query: 253 AVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE 312
           AVA E    F  + GPE+++K  G+SE N+R  F +A   AP ++F DELD++AP+R  E
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR--E 314
Query: 313 DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
                V  R+VSQLL  MDG+     V ++ ATNR + +DPA+ R GR D+ + +G+  D
Sbjct: 315 KTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGI-PD 373
Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR---IITS 429
              +L +L+   +  KL+DDV L+ + +     + GAD+ ++CS A  +AIR+   +I  
Sbjct: 374 ATGRLEILQIHTKNMKLADDVDLEQVANETHGHV-GADLAALCSEAALQAIRKKMDLIDL 432
Query: 430 APQVKSAPVI----VTMDDFLGACSLATAPDKFSQSV 462
             +   A V+    VTMDDF  A S +  P    ++V
Sbjct: 433 EDETIDAEVMNSLAVTMDDFRWALSQSN-PSALRETV 468

>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  173 bits (439), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 107/277 (38%), Positives = 158/277 (57%), Gaps = 19/277 (6%)
Query: 200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRS-------GLLLYGPPGTGKTLIAK 252
           S+  V ++DIGG  K  A+I        R   L ++       G+LLYGPPGTGKTLIA+
Sbjct: 197 SLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIAR 256
Query: 253 AVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE 312
           AVA E    F  + GPE+++K  G+SE N+R  F +A   AP ++F DELD++AP+R  E
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR--E 314
Query: 313 DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
                V  R+VSQLL  MDG+     V ++ ATNR + +DPA+ R GR D+ + +G+  D
Sbjct: 315 KTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGI-PD 373
Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR---IITS 429
              +L +L+   +  KL+DDV L+ + +     + GAD+ ++CS A  +AIR+   +I  
Sbjct: 374 ATGRLEILQIHTKNMKLADDVDLEQVANETHGHV-GADLAALCSEAALQAIRKKMDLIDL 432
Query: 430 APQVKSAPVI----VTMDDFLGACSLATAPDKFSQSV 462
             +   A V+    VTMDDF  A S +  P    ++V
Sbjct: 433 EDETIDAEVMNSLAVTMDDFRWALSQSN-PSALRETV 468

>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  173 bits (438), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 107/277 (38%), Positives = 158/277 (57%), Gaps = 19/277 (6%)
Query: 200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRS-------GLLLYGPPGTGKTLIAK 252
           S+  V ++DIGG  K  A+I        R   L ++       G+LLYGPPGTGKTLIA+
Sbjct: 197 SLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIAR 256
Query: 253 AVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE 312
           AVA E    F  + GPE+++K  G+SE N+R  F +A   AP ++F DELD++AP+R  E
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR--E 314
Query: 313 DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
                V  R+VSQLL  MDG+     V ++ ATNR + +DPA+ R GR D+ + +G+  D
Sbjct: 315 KTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGI-PD 373
Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR---IITS 429
              +L +L+   +  KL+DDV L+ + +     + GAD+ ++CS A  +AIR+   +I  
Sbjct: 374 ATGRLEILQIHTKNMKLADDVDLEQVANETHGHV-GADLAALCSEAALQAIRKKMDLIDL 432
Query: 430 APQVKSAPVI----VTMDDFLGACSLATAPDKFSQSV 462
             +   A V+    VTMDDF  A S +  P    ++V
Sbjct: 433 EDETIDAEVMNSLAVTMDDFRWALSQSN-PSALRETV 468

>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain Of Membrane Fusion Atpase P97 Length = 458

Iteration: 1
 Score =  173 bits (438), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 104/265 (39%), Positives = 153/265 (57%), Gaps = 18/265 (6%)
Query: 200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRS-------GLLLYGPPGTGKTLIAK 252
           S+  V ++D+GG  K  A+I        R   L ++       G+LLYGPPGTGKTLIA+
Sbjct: 197 SLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIAR 256
Query: 253 AVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE 312
           AVA E    F  + GPE+++K  G+SE N+R  F +A   AP ++F DELD++AP+R  E
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR--E 314
Query: 313 DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
                V  R+VSQLL  MDG+     V ++ ATNR + +DPA+ R GR D+ + +G+  D
Sbjct: 315 KTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGI-PD 373
Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR---IITS 429
              +L +L+   +  KL+DDV L+ + +     + GAD+ ++CS A  +AIR+   +I  
Sbjct: 374 ATGRLEILQIHTKNMKLADDVDLEQVANETHGHV-GADLAALCSEAALQAIRKKMDLIDL 432
Query: 430 APQVKSAPVI----VTMDDFLGACS 450
             +   A V+    VTMDDF  A S
Sbjct: 433 EDETIDAEVMNSLAVTMDDFRWALS 457

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score =  160 bits (406), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 90/232 (38%), Positives = 133/232 (57%), Gaps = 9/232 (3%)
Query: 202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRS-------GLLLYGPPGTGKTLIAKAV 254
           P+V++ D+GGL   K EI          + L          G+LLYGPPGTGKT++ KAV
Sbjct: 167 PDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAV 226
Query: 255 ATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR-GQED 313
           A   +  F+ V G E ++KY+G+    +R+VF  AR  AP ++F DE+DS+A +R   + 
Sbjct: 227 ANSTKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQT 286
Query: 314 QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDR 373
            S   + R++ +LL +MDG   S +V ++ ATNR D LDPA+LRPGRLD+ +      DR
Sbjct: 287 GSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDR 346
Query: 374 ISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR 425
             +  +   +  K  L+ +  LDSL+    S +SGA I +I   A  RA+R+
Sbjct: 347 RERRLIFGTIASKMSLAPEADLDSLIIRNDS-LSGAVIAAIMQEAGLRAVRK 397

>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 405

Iteration: 1
 Score =  147 bits (372), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 86/233 (36%), Positives = 134/233 (57%), Gaps = 12/233 (5%)
Query: 201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRS-------GLLLYGPPGTGKTLIAKA 253
           VP+ +++ +GGL+K   EI        +   L  S       G++LYGPPGTGKTL+A+A
Sbjct: 142 VPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARA 201
Query: 254 VATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR--GQ 311
           VA      F+ V G EL+ KYIG+    +R +F+ AR  AP ++F DE+DS+   R  G 
Sbjct: 202 VAHHTDCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGS 261
Query: 312 EDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
               S V  R + +LL ++DG  TS+++ I+ ATNR+D+LDPA+LRPGR+D+ +      
Sbjct: 262 GGGDSEV-QRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFP-PP 319
Query: 372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
              ++  +L+   RK  L+  ++L  +     +  SGAD+  +C+ A   A+R
Sbjct: 320 SVAARAEILRIHSRKMNLTRGINLRKVAEKM-NGCSGADVKGVCTEAGMYALR 371

>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh Length = 257

Iteration: 1
 Score =  145 bits (366), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 78/234 (33%), Positives = 137/234 (58%), Gaps = 12/234 (5%)
Query: 205 SWEDIGGLSKLK---AEILSTFRGVNR---TSGLKRSGLLLYGPPGTGKTLIAKAVATEC 258
           ++ D+ G  + K   AE++   R  +R     G    G+L+ GPPGTGKTL+AKA+A E 
Sbjct: 10  TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA 69
Query: 259 RMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE-DQSSG 317
           ++ F  + G + +  ++G     +R++F +A+ AAPC++F DE+D++  +RG        
Sbjct: 70  KVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHD 129
Query: 318 VMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQL 377
             ++ ++Q+L EMDG   ++ + ++ ATNR D+LDPA+LRPGR D+ + VGL + R  + 
Sbjct: 130 EREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQ 189
Query: 378 GVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNA---WTRAIRRIIT 428
            +LK  +R+  L+ D+    +    P   SGAD+ ++ + A     R  +R+++
Sbjct: 190 -ILKVHMRRVPLAPDIDAAIIARGTPG-FSGADLANLVNEAALFAARGNKRVVS 241

>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score =  145 bits (365), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 94/249 (37%), Positives = 142/249 (57%), Gaps = 20/249 (8%)
Query: 202 PNVSWEDIGGLS------KLKAEILSTFRGVNRTSGLKR-SGLLLYGPPGTGKTLIAKAV 254
           P  S+ DIGGL       K   E+  T   +    G+K   G++LYG PGTGKTL+AKAV
Sbjct: 177 PTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAV 236
Query: 255 ATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ 314
           A +    FL + G EL+ KY+G      R +F  A   AP +VF DE+D++  +R   D 
Sbjct: 237 ANQTSATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKR--YDS 294
Query: 315 SSG---VMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
           +SG    + R + +LL ++DG     DV ++ ATN+++ LDPA++RPGR+D+ +   L+E
Sbjct: 295 NSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKI---LFE 351
Query: 372 --DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAI--RRII 427
             D  ++  +L     K  LS+DV+L++LV      +SGADI ++C+ A   A+  RR+ 
Sbjct: 352 NPDLSTKKKILGIHTSKMNLSEDVNLETLVTT-KDDLSGADIQAMCTEAGLLALRERRMQ 410
Query: 428 TSAPQVKSA 436
            +A   K A
Sbjct: 411 VTAEDFKQA 419

>pdb|2CE7|A Chain A, Edta Treated Length = 476

Iteration: 1
 Score =  145 bits (365), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 81/228 (35%), Positives = 131/228 (57%), Gaps = 9/228 (3%)
Query: 204 VSWEDIGG----LSKLK--AEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE 257
           V+++D+GG    + +LK   E L      NR       G+LL GPPGTGKTL+A+AVA E
Sbjct: 13  VTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGE 72
Query: 258 CRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE-DQSS 316
             + F  + G + +  ++G     +R++F +A++ APC+VF DE+D++   RG       
Sbjct: 73  ANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGH 132
Query: 317 GVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQ 376
              ++ ++QLL EMDG  + + + ++ ATNR D+LDPA+LRPGR DK + V    D + +
Sbjct: 133 DEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVD-PPDMLGR 191
Query: 377 LGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
             +L+   R   L++DV+L+ +    P    GAD+ ++ + A   A R
Sbjct: 192 KKILEIHTRNKPLAEDVNLEIIAKRTPG-FVGADLENLVNEAALLAAR 238

>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure Length = 465

Iteration: 1
 Score =  142 bits (359), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 80/228 (35%), Positives = 130/228 (57%), Gaps = 9/228 (3%)
Query: 204 VSWEDIGG----LSKLK--AEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE 257
           V+++D+GG    + +LK   E L      NR       G+LL GPPGTG TL+A+AVA E
Sbjct: 13  VTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGE 72
Query: 258 CRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE-DQSS 316
             + F  + G + +  ++G     +R++F +A++ APC+VF DE+D++   RG       
Sbjct: 73  ANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGH 132
Query: 317 GVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQ 376
              ++ ++QLL EMDG  + + + ++ ATNR D+LDPA+LRPGR DK + V    D + +
Sbjct: 133 DEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVD-PPDMLGR 191
Query: 377 LGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
             +L+   R   L++DV+L+ +    P    GAD+ ++ + A   A R
Sbjct: 192 KKILEIHTRNKPLAEDVNLEIIAKRTPG-FVGADLENLVNEAALLAAR 238

>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 434

Iteration: 1
 Score =  142 bits (359), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 104/343 (30%), Positives = 171/343 (49%), Gaps = 26/343 (7%)
Query: 97  KQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTC 156
           +Q+  L    + V+ + E E +     +    GG+   D + V   + V +   +     
Sbjct: 73  RQLPYLVANVVEVMDMNEIEDKE--NSESTTQGGNVNLDNTAVGKAAVVKTSSRQTVFLP 130
Query: 157 LVRLSVKNKMLKQ---GINKRDLQKEDFQQIYDDLQSRYSDQLDAPSV---PNVSWEDIG 210
           +V L   +K+      G+NK      D   I D L S +  ++ A  V   P  ++ D+G
Sbjct: 131 MVGLVDPDKLKPNDLVGVNK------DSYLILDTLPSEFDSRVKAMEVDEKPTETYSDVG 184
Query: 211 GLSKLKAEILSTF-RGVNRTSGLKRSGL------LLYGPPGTGKTLIAKAVATECRMNFL 263
           GL K   E++      + R    K  G+      L+YGPPGTGKTL+A+A A +    FL
Sbjct: 185 GLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFL 244
Query: 264 AVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSG-VMDRV 322
            +  P+L+  YIG+  + +R+ F  A+  AP ++F DELD++  +R   ++S    + R 
Sbjct: 245 KLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRT 304
Query: 323 VSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL-YEDRISQLGVLK 381
           + +LL ++DG  +   V +L ATNRVD+LDPA+LR GRLD+ +   L  ED  +Q  +L+
Sbjct: 305 MLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQ--ILQ 362
Query: 382 AVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
              RK    DD++   L      + +GA + ++   A   A+R
Sbjct: 363 IHSRKMTTDDDINWQELARS-TDEFNGAQLKAVTVEAGMIALR 404

>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp Length = 262

Iteration: 1
 Score =  140 bits (352), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 87/239 (36%), Positives = 137/239 (57%), Gaps = 16/239 (6%)
Query: 203 NVSWEDIGGLSKLKAEI---LSTFRGVNRTSGLKRS---GLLLYGPPGTGKTLIAKAVAT 256
            VS++D+ G+ + K E+   +   +   R   L      G LL GPPG GKTL+AKAVAT
Sbjct: 2   GVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT 61
Query: 257 ECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ-- 314
           E ++ FLA+ G E +    G     +R++F +AR+ APC+V+ DE+D++  +R       
Sbjct: 62  EAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGF 121
Query: 315 SSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL--YED 372
           S+   ++ ++QLL EMDG+ T+  V +L +TNR D+LD A++RPGRLD+ +++ L   ++
Sbjct: 122 SNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQE 181
Query: 373 RISQLGVLKAVVRKFKLSDDVSLDS--LVHHFPSQMSGADIYSICSNAWTRAIRRIITS 429
           R     + +  ++  KL+   +  S  L    P   SGADI +IC+ A   A R   TS
Sbjct: 182 RRE---IFEQHLKSLKLTQSSTFYSQRLAELTPG-FSGADIANICNEAALHAAREGHTS 236

>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent Protease, Ftsh Length = 268

Iteration: 1
 Score =  139 bits (350), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 83/233 (35%), Positives = 134/233 (57%), Gaps = 13/233 (5%)
Query: 202 PNVSWEDIGGLSKLKAEILSTF-------RGVNRTSGLKRSGLLLYGPPGTGKTLIAKAV 254
           PNV ++D+ G  + K E++          R  N  + + + G+LL GPPGTGKTL+AKAV
Sbjct: 6   PNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPK-GVLLVGPPGTGKTLLAKAV 64
Query: 255 ATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ 314
           A E  + F ++ G   +  ++G     +R++F  A+  AP ++F DE+D++   R     
Sbjct: 65  AGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGV 124
Query: 315 SSGVMDR--VVSQLLAEMDGVHTSQ-DVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
            SG  +R   ++QLLAEMDG  +    V +L ATNR ++LDPA++RPGR D+ + V    
Sbjct: 125 VSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVD-KP 183
Query: 372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
           D   ++ +LK  ++  KL++DV+L   V    + ++GAD+ +I + A   A R
Sbjct: 184 DFNGRVEILKVHIKGVKLANDVNLQE-VAKLTAGLAGADLANIINEAALLAGR 235

>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score =  135 bits (341), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 83/229 (36%), Positives = 127/229 (55%), Gaps = 10/229 (4%)
Query: 204 VSWEDIGGLSKLKAEILSTFR------GVNRTSGLKR-SGLLLYGPPGTGKTLIAKAVAT 256
           ++++ IGGL++   E+            + +  G+K   G+LLYGPPGTGKTL+AKAVA 
Sbjct: 178 ITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAA 237
Query: 257 ECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSS 316
               NF+      +++KYIG+S   IR +F  A+   PC++F DE+D++  RR  E  S+
Sbjct: 238 TIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSA 297
Query: 317 G-VMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRIS 375
              + R + +LL +MDG        I+ ATNR D LDPA+LRPGRLD+ + + L  +   
Sbjct: 298 DREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPL-PNEAG 356
Query: 376 QLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
           +L + K    K K + +   ++ V       +GADI +  + A   AIR
Sbjct: 357 RLEIFKIHTAKVKKTGEFDFEAAV-KMSDGFNGADIRNCATEAGFFAIR 404

>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 467

Iteration: 1
 Score =  129 bits (325), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 76/232 (32%), Positives = 128/232 (55%), Gaps = 12/232 (5%)
Query: 202 PNVSWEDIGG----LSKLKAEILSTFRGVNRTSGL---KRSGLLLYGPPGTGKTLIAKAV 254
           P+V++ D+GG    + KL+  +        R + L      G+LLYGPPGTGKTL A+AV
Sbjct: 204 PDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAV 263
Query: 255 ATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ 314
           A      F+ V G EL+ KY+G+    +R +F  AR+   C++FFDE+D++   R  +D 
Sbjct: 264 ANRTDATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGAR-FDDG 322
Query: 315 SSG--VMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
           + G   + R + +L+ ++DG     ++ ++ ATNR + LDPA+LRPGR+D+ +   L  D
Sbjct: 323 AGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSL-PD 381
Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
              +  + +   +   +   +  + L+       +GA++ S+C+ A   AIR
Sbjct: 382 LEGRANIFRIHSKSMSVERGIRWE-LISRLCPNSTGAELRSVCTEAGMFAIR 432

>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer Length = 331

Iteration: 1
 Score =  127 bits (320), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 88/242 (36%), Positives = 136/242 (56%), Gaps = 32/242 (13%)
Query: 202 PNVSWEDIGGLSKLK-----AEILST-----FRGVNRTSGLKRSGLLLYGPPGTGKTLIA 251
           PNV WED+ GL   K     A IL       F+G  + +    SG+LLYGPPGTGK+ +A
Sbjct: 22  PNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPT----SGILLYGPPGTGKSYLA 77
Query: 252 KAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQ 311
           KAVATE    F +V   +L++K++G+SE+ ++ +F  AR   P ++F DE+D+L   RG+
Sbjct: 78  KAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDEVDALTGTRGE 137
Query: 312 EDQSSGVMDRVVSQLLAEMDGV-HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLY 370
            +  S    R+ ++LL +M+GV + SQ V +LGATN    LD AI R  R ++ +Y+ L 
Sbjct: 138 GE--SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLP 193
Query: 371 E--DRIS----QLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
           +   R +     +G    V+ K    D  +L ++   +    SG+DI  +  +A  + IR
Sbjct: 194 DLAARTTMFEINVGDTPCVLTK---EDYRTLGAMTEGY----SGSDIAVVVKDALMQPIR 246
Query: 425 RI 426
           +I
Sbjct: 247 KI 248

>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4 Length = 355

Iteration: 1
 Score =  127 bits (319), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 84/242 (34%), Positives = 135/242 (55%), Gaps = 32/242 (13%)
Query: 202 PNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKTLIA 251
           PNV WED+ GL   K  +             F+G  + +    SG+LLYGPPGTGK+ +A
Sbjct: 46  PNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPT----SGILLYGPPGTGKSYLA 101
Query: 252 KAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQ 311
           KAVATE    F +V   +L++K++G+SE+ ++ +F  AR   P ++F D++D+L   RG+
Sbjct: 102 KAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGE 161
Query: 312 EDQSSGVMDRVVSQLLAEMDGV-HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLY 370
            +  S    R+ ++LL +M+GV + SQ V +LGATN    LD AI R  R ++ +Y+ L 
Sbjct: 162 GE--SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLP 217
Query: 371 E--DRIS----QLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
           +   R +     +G   +V+ K    D  +L ++   +    SG+DI  +  +A  + IR
Sbjct: 218 DLAARTTMFEINVGDTPSVLTK---EDYRTLGAMTEGY----SGSDIAVVVKDALMQPIR 270
Query: 425 RI 426
           +I
Sbjct: 271 KI 272

>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound State Length = 322

Iteration: 1
 Score =  127 bits (318), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 87/242 (35%), Positives = 136/242 (56%), Gaps = 32/242 (13%)
Query: 202 PNVSWEDIGGLSKLK-----AEILST-----FRGVNRTSGLKRSGLLLYGPPGTGKTLIA 251
           PNV WED+ GL   K     A IL       F+G  + +    SG+LLYGPPGTGK+ +A
Sbjct: 13  PNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPT----SGILLYGPPGTGKSYLA 68
Query: 252 KAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQ 311
           KAVATE    F +V   +L++K++G+SE+ ++ +F  AR   P ++F D++D+L   RG+
Sbjct: 69  KAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGE 128
Query: 312 EDQSSGVMDRVVSQLLAEMDGV-HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLY 370
            +  S    R+ ++LL +M+GV + SQ V +LGATN    LD AI R  R ++ +Y+ L 
Sbjct: 129 GE--SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLP 184
Query: 371 E--DRIS----QLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
           +   R +     +G    V+ K    D  +L ++   +    SG+DI  +  +A  + IR
Sbjct: 185 DLAARTTMFEINVGDTPCVLTK---EDYRTLGAMTEGY----SGSDIAVVVKDALMQPIR 237
Query: 425 RI 426
           +I
Sbjct: 238 KI 239

>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of Atpgammas Length = 340

Iteration: 1
 Score =  126 bits (317), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 87/242 (35%), Positives = 136/242 (56%), Gaps = 32/242 (13%)
Query: 202 PNVSWEDIGGLSKLK-----AEILST-----FRGVNRTSGLKRSGLLLYGPPGTGKTLIA 251
           PNV WED+ GL   K     A IL       F+G  + +    SG+LLYGPPGTGK+ +A
Sbjct: 31  PNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPT----SGILLYGPPGTGKSYLA 86
Query: 252 KAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQ 311
           KAVATE    F +V   +L++K++G+SE+ ++ +F  AR   P ++F D++D+L   RG+
Sbjct: 87  KAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGE 146
Query: 312 EDQSSGVMDRVVSQLLAEMDGV-HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLY 370
            +  S    R+ ++LL +M+GV + SQ V +LGATN    LD AI R  R ++ +Y+ L 
Sbjct: 147 GE--SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLP 202
Query: 371 E--DRIS----QLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
           +   R +     +G    V+ K    D  +L ++   +    SG+DI  +  +A  + IR
Sbjct: 203 DLAARTTMFEINVGDTPCVLTK---EDYRTLGAMTEGY----SGSDIAVVVKDALMQPIR 255
Query: 425 RI 426
           +I
Sbjct: 256 KI 257

>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In Complex With Adp Length = 357

Iteration: 1
 Score =  126 bits (316), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 79/243 (32%), Positives = 126/243 (51%), Gaps = 27/243 (11%)
Query: 202 PNVSWEDIGGLSKLKA-------------EILSTFRGVNRTSGLKRSGLLLYGPPGTGKT 248
           P V+WEDI G+   KA             +I +  RG  +       G+LL+GPPGTGKT
Sbjct: 79  PPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPK-------GILLFGPPGTGKT 131
Query: 249 LIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPR 308
           LI K +A++    F ++    L +K++G+ E+ +R +F  AR   P V+F DE+DSL  +
Sbjct: 132 LIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQ 191
Query: 309 RGQEDQSSGVMDRVVSQLLAEMDGVHTSQD--VFILGATNRVDLLDPAILRPGRLDKSLY 366
           RG  +  S    R+ ++ L ++DG  TS +  + ++GATNR   +D A  R  RL K LY
Sbjct: 192 RGDGEHESS--RRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR--RLVKRLY 247
Query: 367 VGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRI 426
           + L E    +  V+  + ++     +  ++ +V       SGAD+  +C  A    IR +
Sbjct: 248 IPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQS-DAFSGADMTQLCREASLGPIRSL 306
Query: 427 ITS 429
            T+
Sbjct: 307 QTA 309

>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 499

Iteration: 1
 Score =  125 bits (315), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 69/181 (38%), Positives = 104/181 (57%), Gaps = 13/181 (7%)
Query: 236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPC 295
           G+LL GPPG GKT +A+AVA E R+ F+   G + +  ++G     +R++F  A+  APC
Sbjct: 66  GVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPC 125
Query: 296 VVFFDELDSLAPRRGQEDQSSGV------MDRVVSQLLAEMDGVHTSQDVFILGATNRVD 349
           +VF DE+D++  +RG     SGV       ++ ++QLL EMDG      + ++ ATNR D
Sbjct: 126 IVFIDEIDAVGRKRG-----SGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPD 180
Query: 350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGA 409
           +LDPA+LRPGR D+ + +    D   +  +L+   R   L++DV L  L    P    GA
Sbjct: 181 ILDPALLRPGRFDRQIAID-APDVKGREQILRIHARGKPLAEDVDLALLAKRTPG-FVGA 238
Query: 410 D 410
           D
Sbjct: 239 D 239

>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 508

Iteration: 1
 Score =  125 bits (314), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 69/181 (38%), Positives = 104/181 (57%), Gaps = 13/181 (7%)
Query: 236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPC 295
           G+LL GPPG GKT +A+AVA E R+ F+   G + +  ++G     +R++F  A+  APC
Sbjct: 75  GVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPC 134
Query: 296 VVFFDELDSLAPRRGQEDQSSGV------MDRVVSQLLAEMDGVHTSQDVFILGATNRVD 349
           +VF DE+D++  +RG     SGV       ++ ++QLL EMDG      + ++ ATNR D
Sbjct: 135 IVFIDEIDAVGRKRG-----SGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPD 189
Query: 350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGA 409
           +LDPA+LRPGR D+ + +    D   +  +L+   R   L++DV L  L    P    GA
Sbjct: 190 ILDPALLRPGRFDRQIAID-APDVKGREQILRIHARGKPLAEDVDLALLAKRTPG-FVGA 247
Query: 410 D 410
           D
Sbjct: 248 D 248

>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 254

Iteration: 1
 Score =  124 bits (312), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 69/181 (38%), Positives = 104/181 (57%), Gaps = 13/181 (7%)
Query: 236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPC 295
           G+LL GPPG GKT +A+AVA E R+ F+   G + +  ++G     +R++F  A+  APC
Sbjct: 51  GVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPC 110
Query: 296 VVFFDELDSLAPRRGQEDQSSGV------MDRVVSQLLAEMDGVHTSQDVFILGATNRVD 349
           +VF DE+D++  +RG     SGV       ++ ++QLL EMDG      + ++ ATNR D
Sbjct: 111 IVFIDEIDAVGRKRG-----SGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPD 165
Query: 350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGA 409
           +LDPA+LRPGR D+ + +    D   +  +L+   R   L++DV L  L    P    GA
Sbjct: 166 ILDPALLRPGRFDRQIAID-APDVKGREQILRIHARGKPLAEDVDLALLAKRTPG-FVGA 223
Query: 410 D 410
           D
Sbjct: 224 D 224

>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 278

Iteration: 1
 Score =  124 bits (312), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 69/181 (38%), Positives = 104/181 (57%), Gaps = 13/181 (7%)
Query: 236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPC 295
           G+LL GPPG GKT +A+AVA E R+ F+   G + +  ++G     +R++F  A+  APC
Sbjct: 75  GVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPC 134
Query: 296 VVFFDELDSLAPRRGQEDQSSGV------MDRVVSQLLAEMDGVHTSQDVFILGATNRVD 349
           +VF DE+D++  +RG     SGV       ++ ++QLL EMDG      + ++ ATNR D
Sbjct: 135 IVFIDEIDAVGRKRG-----SGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPD 189
Query: 350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGA 409
           +LDPA+LRPGR D+ + +    D   +  +L+   R   L++DV L  L    P    GA
Sbjct: 190 ILDPALLRPGRFDRQIAID-APDVKGREQILRIHARGKPLAEDVDLALLAKRTPG-FVGA 247
Query: 410 D 410
           D
Sbjct: 248 D 248

>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b Length = 322

Iteration: 1
 Score =  119 bits (297), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 92/271 (33%), Positives = 140/271 (51%), Gaps = 36/271 (13%)
Query: 202 PNVSWEDIGGLS----KLKAEILSTFRGVNRTSGLKRS---GLLLYGPPGTGKTLIAKAV 254
           PNV W D+ GL      LK  ++   +  +  +G KR+   G+LL+GPPGTGK+ +AKAV
Sbjct: 7   PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAV 65
Query: 255 ATECR-MNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED 313
           ATE     F ++   +L++K++G+SE+ ++N+F  AR   P ++F DE+DSL   R + +
Sbjct: 66  ATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENE 125
Query: 314 QSSGVMDRVVSQLLAEMDGVHTSQD-VFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
             S    R+ ++ L +M GV    D + +LGATN   +LD AI R  R +K +Y+ L E 
Sbjct: 126 --SEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEP 181
Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQM-------SGADIYSICSNAWTRAIRR 425
                    A    FKL    + +SL      ++       SGADI  I  +A  + +R+
Sbjct: 182 H--------ARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRK 233
Query: 426 IITSAPQVKS------APVIVTMDDFLGACS 450
            + SA   K       A     +DD L  CS
Sbjct: 234 -VQSATHFKKVRGPSRADPNHLVDDLLTPCS 263

>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form Length = 444

Iteration: 1
 Score =  117 bits (294), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 89/272 (32%), Positives = 140/272 (51%), Gaps = 38/272 (13%)
Query: 202 PNVSWEDIGGLS----KLKAEILSTFRGVNRTSGLKRS---GLLLYGPPGTGKTLIAKAV 254
           PNV W D+ GL      LK  ++   +  +  +G KR+   G+LL+GPPGTGK+ +AKAV
Sbjct: 129 PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAV 187
Query: 255 ATECR-MNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED 313
           ATE     F ++   +L++K++G+SE+ ++N+F  AR   P ++F DE+DSL   R + +
Sbjct: 188 ATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENE 247
Query: 314 QSSGVMDRVVSQLLAEMDGVHTSQD-VFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
             S    R+ ++ L +M GV    D + +LGATN   +LD AI R  R +K +Y+ L E 
Sbjct: 248 --SEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPE- 302
Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQM-------SGADIYSICSNAWTRAIRR 425
                    A    F+L    + +SL      ++       SGADI  I  +A  + +R+
Sbjct: 303 -------AHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDALMQPVRK 355
Query: 426 IITS-------APQVKSAPVIVTMDDFLGACS 450
           + ++        P       IV  +D L  CS
Sbjct: 356 VQSATHFKKVRGPSRADPNCIV--NDLLTPCS 385

>pdb|3VFD|A Chain A, Human Spastin Aaa Domain Length = 389

Iteration: 1
 Score =  111 bits (278), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 69/193 (35%), Positives = 104/193 (53%), Gaps = 17/193 (8%)
Query: 181 FQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLY 240
             +I D+  +   D +    +   + ++I  L  L+ E+ +  R   R       GLLL+
Sbjct: 102 MNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPAR-------GLLLF 154
Query: 241 GPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFD 300
           GPPG GKT++AKAVA E    F  +    L +KY+G+ E+ +R +F  AR   P ++F D
Sbjct: 155 GPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFID 214
Query: 301 ELDSL--APRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD--VFILGATNRVDLLDPAIL 356
           ++DSL    R G+ D S     R+ ++ L E DGV ++ D  V ++GATNR   LD A+L
Sbjct: 215 QVDSLLCERREGEHDASR----RLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVL 270
Query: 357 RPGRLDKSLYVGL 369
           R  R  K +YV L
Sbjct: 271 R--RFIKRVYVSL 281

>pdb|3B9P|A Chain A, Spastin Length = 297

Iteration: 1
 Score =  111 bits (278), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 89/284 (31%), Positives = 138/284 (48%), Gaps = 40/284 (14%)
Query: 203 NVSWEDIGG-------------LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTL 249
            V W DI G             L  ++ E+ +  R   +       GLLL+GPPG GKTL
Sbjct: 17  KVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAK-------GLLLFGPPGNGKTL 69
Query: 250 IAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR 309
           +A+AVATEC   FL +    L +KY+G  E+ +R +F  AR   P ++F DE+DSL   R
Sbjct: 70  LARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSER 129
Query: 310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQD---VFILGATNRVDLLDPAILRPGRLDKSLY 366
              +  +    R+ ++ L E DG+  + D   + +L ATNR   LD A LR  R  K +Y
Sbjct: 130 SSSEHEAS--RRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR--RFTKRVY 185
Query: 367 VGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRI 426
           V L +++  +L + + + ++    D  +L  L        SG+D+ ++  +A    IR +
Sbjct: 186 VSLPDEQTRELLLNRLLQKQGSPLDTEALRRLA-KITDGYSGSDLTALAKDAALEPIREL 244
Query: 427 ITSAPQVK----SAPVIVTMDDFLGACSLATAPDKFSQSVAPDN 466
             +  QVK    SA   +T  DF  +        +  +SVAP +
Sbjct: 245 --NVEQVKCLDISAMRAITEQDFHSSLK------RIRRSVAPQS 280

>pdb|3T15|A Chain A, Structure Of Green-Type Rubisco Activase From Tobacco Length = 293

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 48/188 (25%), Positives = 87/188 (46%), Gaps = 27/188 (14%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKA----RSA 292
           L ++G  G GK+   + V  +  +N + +   EL +   G+  + IR  + +A    R  
Sbjct: 39  LGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKG 98
Query: 293 APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLL---------AEMDGVHTSQD---VF 340
             C +F ++LD+ A R G   Q + V +++V+  L          ++ G++  Q+   V 
Sbjct: 99  NMCCLFINDLDAGAGRMGGTTQYT-VNNQMVNATLMNIADNPTNVQLPGMYNKQENARVP 157
Query: 341 ILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLD---S 397
           I+   N    L   ++R GR++K  +    EDRI   GV   + R    +D+V  +    
Sbjct: 158 IIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRI---GVCTGIFR----TDNVPAEDVVK 210
Query: 398 LVHHFPSQ 405
           +V +FP Q
Sbjct: 211 IVDNFPGQ 218

>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx Length = 376

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 6/79 (7%)
Query: 234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK-YIGQSEENIRNVFLKA--- 289
           +S +LL GP G+GKTL+A+ +A    +         L    Y+G+  ENI    L+A   
Sbjct: 72  KSNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDW 131
Query: 290 --RSAAPCVVFFDELDSLA 306
             + A   +VF DE+D ++
Sbjct: 132 NVQKAQKGIVFIDEIDKIS 150

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	478
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	1e-126
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-124
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-112
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	9e-73
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	4e-81
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	2e-04
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	1e-79
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	1e-77
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	2e-76
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	2e-74
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	2e-73
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	4e-72
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	3e-71
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	4e-68
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	3e-67
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	1e-47
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	4e-46
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	5e-46
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	8e-46
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	9e-46
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	4e-45
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	3e-39
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	1e-38
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	7e-17
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	2e-15
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-10
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	2e-07
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	3e-07
2dzn_B	82	26S protease regulatory subunit 6B homolog; ankyri	6e-07
3pvs_A	447	Replication-associated recombination protein A; ma	2e-05
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	7e-05
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	7e-05
2chg_A	226	Replication factor C small subunit; DNA-binding pr	8e-05
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	1e-04
2qgz_A	308	Helicase loader, putative primosome component; str	2e-04
2krk_A	86	26S protease regulatory subunit 8; structural geno	3e-04
3kw6_A	78	26S protease regulatory subunit 8; structural geno	3e-04
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	3e-04
2chq_A	319	Replication factor C small subunit; DNA-binding pr	3e-04
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	6e-04
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	7e-04
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	7e-04

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score =  366 bits (943), Expect = e-126
 Identities = 114/263 (43%), Positives = 161/263 (61%), Gaps = 21/263 (7%)

Query: 201 VPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLK-RSGLLLYGPPGTGKTL 249
           VPNV+W DIG L  ++ E+             F+ +    GL   +G+LL GPPG GKTL
Sbjct: 4   VPNVTWADIGALEDIREELTMAILAPVRNPDQFKAL----GLVTPAGVLLAGPPGCGKTL 59

Query: 250 IAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR 309
           +AKAVA E  +NF++VKGPELLN Y+G+SE  +R VF +A+++APCV+FFDE+D+L PRR
Sbjct: 60  LAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRR 119

Query: 310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
              +  +G   RVV+QLL EMDG+   Q VFI+ ATNR D++DPAILRPGRLDK+L+VGL
Sbjct: 120 SDRE--TGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGL 177

Query: 370 --YEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQ-MSGADIYSICSNAWTRAIRRI 426
               DR++ L  +     K  L  DV+L+++         +GAD+ ++   A   A+R+ 
Sbjct: 178 PPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQE 237

Query: 427 ITSAPQVKSAP-VIVTMDDFLGA 448
           +           + V+   F  A
Sbjct: 238 MARQKSGNEKGELKVSHKHFEEA 260

>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} Length = 301

 Score =  362 bits (931), Expect = e-124
 Identities = 122/274 (44%), Positives = 162/274 (59%), Gaps = 31/274 (11%)

Query: 201 VPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKTLI 250
           VP V+WEDIGGL  +K E+             F     T      G+L YGPPG GKTL+
Sbjct: 9   VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMT---PSKGVLFYGPPGCGKTLL 65

Query: 251 AKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRG 310
           AKA+A EC+ NF+++KGPELL  + G+SE N+R +F KAR AAPCV+FFDELDS+A  RG
Sbjct: 66  AKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG 125

Query: 311 QED-QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
                  G  DRV++Q+L EMDG+ T ++VFI+GATNR D++DPAILRPGRLD+ +Y+ L
Sbjct: 126 GNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPL 185

Query: 370 YEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS 429
             D  S++ +LKA +RK  ++ DV L+ L     +  SGAD+  IC  A   AIR  I S
Sbjct: 186 -PDEKSRVAILKANLRKSPVAKDVDLEFLAKM-TNGFSGADLTEICQRACKLAIRESIES 243

Query: 430 APQVKSAP---------------VIVTMDDFLGA 448
             + +                    +  D F  A
Sbjct: 244 EIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEA 277

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score =  258 bits (662), Expect = 4e-81
 Identities = 102/266 (38%), Positives = 149/266 (56%), Gaps = 24/266 (9%)

Query: 200 SVPNVSWEDIGGLSKLKAEILS------TFRGVNRTSGLKR-SGLLLYGPPGTGKTLIAK 252
           S+  V ++DIGG  K  A+I            + +  G+K   G+LLYGPPGTGKTLIA+
Sbjct: 197 SLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIAR 256

Query: 253 AVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE 312
           AVA E    F  + GPE+++K  G+SE N+R  F +A   AP ++F DELD++AP+R  E
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR--E 314

Query: 313 DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
                V  R+VSQLL  MDG+     V ++ ATNR + +DPA+ R GR D+ + +G+  D
Sbjct: 315 KTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGI-PD 373

Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLV---HHFPSQMSGADIYSICSNAWTRAIRRIIT- 428
              +L +L+   +  KL+DDV L+ +    H       GAD+ ++CS A  +AIR+ +  
Sbjct: 374 ATGRLEILQIHTKNMKLADDVDLEQVANETHGH----VGADLAALCSEAALQAIRKKMDL 429

Query: 429 ------SAPQVKSAPVIVTMDDFLGA 448
                 +        + VTMDDF  A
Sbjct: 430 IDLEDETIDAEVMNSLAVTMDDFRWA 455

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score = 42.5 bits (100), Expect = 2e-04
 Identities = 24/92 (26%), Positives = 40/92 (43%), Gaps = 15/92 (16%)

Query: 139 VEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDF-QQIYDDLQSRYSDQLD 197
           +E +++ T G    DL  L   +   + +++ ++  DL+ E    ++ + L     D   
Sbjct: 396 LEQVANETHGHVGADLAALCSEAA-LQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRW 454

Query: 198 A-----PS--------VPNVSWEDIGGLSKLK 216
           A     PS        VP V+WEDIGG S   
Sbjct: 455 ALSQSNPSALRETVVEVPQVTWEDIGGRSHHH 486

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score =  248 bits (635), Expect = 1e-79
 Identities = 109/261 (41%), Positives = 149/261 (57%), Gaps = 30/261 (11%)

Query: 201 VPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKR-SGLLLYGPPGTGKTL 249
            PNV +EDIGGL K   EI             F  V    G++   G+LLYGPPGTGKTL
Sbjct: 11  RPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKV----GIEPPKGILLYGPPGTGKTL 66

Query: 250 IAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR 309
           +AKAVATE    F+ V G EL+ K+IG+    ++++F  A+  AP ++F DE+D++A +R
Sbjct: 67  LAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKR 126

Query: 310 GQEDQSSG--VMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYV 367
             +  + G   + R + QLLAEMDG     DV I+GATNR D+LDPAILRPGR D+ + V
Sbjct: 127 T-DALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEV 185

Query: 368 GLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII 427
               D   +L +LK   RK  L++DV+L+ +         GA++ +IC+ A   AIR + 
Sbjct: 186 PA-PDEKGRLEILKIHTRKMNLAEDVNLEEIA-KMTEGCVGAELKAICTEAGMNAIRELR 243

Query: 428 TSAPQVKSAPVIVTMDDFLGA 448
                       VTMDDF  A
Sbjct: 244 D----------YVTMDDFRKA 254

>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 Length = 322

 Score =  244 bits (625), Expect = 1e-77
 Identities = 87/265 (32%), Positives = 135/265 (50%), Gaps = 29/265 (10%)

Query: 201 VPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKTLI 250
            PNV WED+ GL   K  +             F+G  + +    SG+LLYGPPGTGK+ +
Sbjct: 12  KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPT----SGILLYGPPGTGKSYL 67

Query: 251 AKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRG 310
           AKAVATE    F +V   +L++K++G+SE+ ++ +F  AR   P ++F D++D+L   RG
Sbjct: 68  AKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRG 127

Query: 311 QEDQSSGVMDRVVSQLLAEMDGV-HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
           + +  S    R+ ++LL +M+GV + SQ V +LGATN    LD AI R  R ++ +Y+ L
Sbjct: 128 EGE--SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPL 183

Query: 370 YEDRISQLGVLKAVVRKFKLS-DDVSLDSLV---HHFPSQMSGADIYSICSNAWTRAIRR 425
             D  ++  + +  V             +L      +    SG+DI  +  +A  + IR+
Sbjct: 184 -PDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGY----SGSDIAVVVKDALMQPIRK 238

Query: 426 IITSAPQVKSAPVIVTMDDFLGACS 450
           I  SA   K           L  CS
Sbjct: 239 IQ-SATHFKDVSTEDDETRKLTPCS 262

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score =  241 bits (617), Expect = 2e-76
 Identities = 83/271 (30%), Positives = 132/271 (48%), Gaps = 34/271 (12%)

Query: 201 VPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKTLI 250
            PNV W D+ GL   K  +             F G          G+LL+GPPGTGK+ +
Sbjct: 6   RPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPW----RGILLFGPPGTGKSYL 61

Query: 251 AKAVATECRM-NFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR 309
           AKAVATE     F ++   +L++K++G+SE+ ++N+F  AR   P ++F DE+DSL   R
Sbjct: 62  AKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSR 121

Query: 310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQD-VFILGATNRVDLLDPAILRPGRLDKSLYVG 368
            + +  S    R+ ++ L +M GV    D + +LGATN   +LD AI R  R +K +Y+ 
Sbjct: 122 SENE--SEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIP 177

Query: 369 LYEDRISQLGVLKAVVRKFKLS-DDVSLDSLV---HHFPSQMSGADIYSICSNAWTRAIR 424
           L  +  ++  + K  +   + S  +     L      +    SGADI  I  +A  + +R
Sbjct: 178 L-PEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGY----SGADISIIVRDALMQPVR 232

Query: 425 RIITS-----APQVKSAPVIVTMDDFLGACS 450
           ++ ++           A     +DD L  CS
Sbjct: 233 KVQSATHFKKVRGPSRADPNHLVDDLLTPCS 263

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score =  235 bits (601), Expect = 2e-74
 Identities = 82/266 (30%), Positives = 123/266 (46%), Gaps = 26/266 (9%)

Query: 199 PSVPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKT 248
                V W DI G    K  +             F G+   +     GLLL+GPPG GKT
Sbjct: 13  EGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPA----KGLLLFGPPGNGKT 68

Query: 249 LIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPR 308
           L+A+AVATEC   FL +    L +KY+G  E+ +R +F  AR   P ++F DE+DSL   
Sbjct: 69  LLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSE 128

Query: 309 RGQEDQSSGVMDRVVSQLLAEMDGVHTSQD---VFILGATNRVDLLDPAILRPGRLDKSL 365
           R   +       R+ ++ L E DG+  + D   + +L ATNR   LD A LR  R  K +
Sbjct: 129 RSSSE--HEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR--RFTKRV 184

Query: 366 YVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
           YV L  D  ++  +L  +++K     D  +L  L        SG+D+ ++  +A    IR
Sbjct: 185 YVSL-PDEQTRELLLNRLLQKQGSPLDTEALRRLAKIT-DGYSGSDLTALAKDAALEPIR 242

Query: 425 RIITSAPQVKSAPVI--VTMDDFLGA 448
            +     +      +  +T  DF  +
Sbjct: 243 ELNVEQVKCLDISAMRAITEQDFHSS 268

>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} Length = 357

 Score =  234 bits (599), Expect = 2e-73
 Identities = 80/265 (30%), Positives = 131/265 (49%), Gaps = 25/265 (9%)

Query: 199 PSVPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKT 248
              P V+WEDI G+   KA I             F G+         G+LL+GPPGTGKT
Sbjct: 76  DHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPP----KGILLFGPPGTGKT 131

Query: 249 LIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPR 308
           LI K +A++    F ++    L +K++G+ E+ +R +F  AR   P V+F DE+DSL  +
Sbjct: 132 LIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQ 191

Query: 309 RGQEDQSSGVMDRVVSQLLAEMDGVHTSQD--VFILGATNRVDLLDPAILRPGRLDKSLY 366
           RG  +       R+ ++ L ++DG  TS +  + ++GATNR   +D A  R  RL K LY
Sbjct: 192 RGDGE--HESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR--RLVKRLY 247

Query: 367 VGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR 425
           + L  +  ++  ++  ++ K +    +  ++ +V       SGAD+  +C  A    IR 
Sbjct: 248 IPL-PEASARKQIVINLMSKEQCCLSEEEIEQIVQQ-SDAFSGADMTQLCREASLGPIRS 305

Query: 426 IITSAPQVKSAPVI--VTMDDFLGA 448
           + T+     +   +  +   DF  A
Sbjct: 306 LQTADIATITPDQVRPIAYIDFENA 330

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score =  232 bits (593), Expect = 4e-72
 Identities = 82/296 (27%), Positives = 141/296 (47%), Gaps = 26/296 (8%)

Query: 168 KQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILST----- 222
                ++    ++F+ +  +L +   +++   +   V ++DI G    K  +        
Sbjct: 77  PTTATRKKKDLKNFRNVDSNLANLIMNEI-VDNGTAVKFDDIAGQDLAKQALQEIVILPS 135

Query: 223 -----FRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQ 277
                F G+   +     GLLL+GPPG GKT++AKAVA E    F  +    L +KY+G+
Sbjct: 136 LRPELFTGLRAPA----RGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGE 191

Query: 278 SEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQ 337
            E+ +R +F  AR   P ++F D++DSL   R + +       R+ ++ L E DGV ++ 
Sbjct: 192 GEKLVRALFAVARELQPSIIFIDQVDSLLCERREGE--HDASRRLKTEFLIEFDGVQSAG 249

Query: 338 D--VFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVS 394
           D  V ++GATNR   LD A+LR  R  K +YV L  +  ++L +LK ++ K         
Sbjct: 250 DDRVLVMGATNRPQELDEAVLR--RFIKRVYVSL-PNEETRLLLLKNLLCKQGSPLTQKE 306

Query: 395 LDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVI--VTMDDFLGA 448
           L  L        SG+D+ ++  +A    IR +     +  SA  +  + + DF  +
Sbjct: 307 LAQLARMTDG-YSGSDLTALAKDAALGPIRELKPEQVKNMSASEMRNIRLSDFTES 361

>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* Length = 355

 Score =  229 bits (585), Expect = 3e-71
 Identities = 81/247 (32%), Positives = 130/247 (52%), Gaps = 32/247 (12%)

Query: 200 SVPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKTL 249
             PNV WED+ GL   K  +             F+G  + +    SG+LLYGPPGTGK+ 
Sbjct: 44  EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPT----SGILLYGPPGTGKSY 99

Query: 250 IAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR 309
           +AKAVATE    F +V   +L++K++G+SE+ ++ +F  AR   P ++F D++D+L   R
Sbjct: 100 LAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTR 159

Query: 310 GQEDQSSGVMDRVVSQLLAEMDGV-HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVG 368
           G+ +  S    R+ ++LL +M+GV + SQ V +LGATN    LD AI R  R ++ +Y+ 
Sbjct: 160 GEGE--SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIP 215

Query: 369 L--YEDRISQLGVLKAVVRKFK-LSDDVSLDSLV---HHFPSQMSGADIYSICSNAWTRA 422
           L     R +     +  V     +       +L      +    SG+DI  +  +A  + 
Sbjct: 216 LPDLAARTTM---FEINVGDTPSVLTKEDYRTLGAMTEGY----SGSDIAVVVKDALMQP 268

Query: 423 IRRIITS 429
           IR+I ++
Sbjct: 269 IRKIQSA 275

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score =  218 bits (558), Expect = 4e-68
 Identities = 53/261 (20%), Positives = 104/261 (39%), Gaps = 33/261 (12%)

Query: 208 DIGGLSKLKAE----ILSTFRGVNRTSGLKR-SGLLLYGPPGTGKTLIAKAVATECRMNF 262
            + G     A     ++   +   +   +K    L ++G  G GK+   + V  +  +N 
Sbjct: 5   KLDGFYIAPAFMDKLVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGINP 64

Query: 263 LAVKGPELLNKYIGQSEENIRNVFLKA----RSAAPCVVFFDELDSLAPRRGQEDQSSGV 318
           + +   EL +   G+  + IR  + +A    R    C +F ++LD+ A R G   Q   V
Sbjct: 65  IMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQ-YTV 123

Query: 319 MDRVVSQLL---------AEMDGVHTSQD---VFILGATNRVDLLDPAILRPGRLDKSLY 366
            +++V+  L          ++ G++  Q+   V I+   N    L   ++R GR++K  +
Sbjct: 124 NNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW 183

Query: 367 VGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSIC---SNAWTRAI 423
               EDRI   GV   + R    +D+V  + +V        G  I       +  +   +
Sbjct: 184 APTREDRI---GVCTGIFR----TDNVPAEDVV-KIVDNFPGQSIDFFGALRARVYDDEV 235

Query: 424 RRIITSAPQVKSAPVIVTMDD 444
           R+ ++     K    ++   D
Sbjct: 236 RKWVSGTGIEKIGDKLLNSFD 256

>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 Length = 444

 Score =  221 bits (564), Expect = 3e-67
 Identities = 81/270 (30%), Positives = 131/270 (48%), Gaps = 28/270 (10%)

Query: 199 PSVPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKT 248
              PNV W D+ GL   K  +             F G          G+LL+GPPGTGK+
Sbjct: 126 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPW----RGILLFGPPGTGKS 181

Query: 249 LIAKAVATECRM-NFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAP 307
            +AKAVATE     F ++   +L++K++G+SE+ ++N+F  AR   P ++F DE+DSL  
Sbjct: 182 YLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCG 241

Query: 308 RRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD-VFILGATNRVDLLDPAILRPGRLDKSLY 366
            R + +  S    R+ ++ L +M GV    D + +LGATN   +LD AI R  R +K +Y
Sbjct: 242 SRSENE--SEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIY 297

Query: 367 VGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR 425
           + L  +  ++  + +  +   + S  +     L        SGADI  I  +A  + +R+
Sbjct: 298 IPL-PEAHARAAMFRLHLGSTQNSLTEADFQELGRKT-DGYSGADISIIVRDALMQPVRK 355

Query: 426 IITS-----APQVKSAPVIVTMDDFLGACS 450
           + ++           A     ++D L  CS
Sbjct: 356 VQSATHFKKVRGPSRADPNCIVNDLLTPCS 385

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Length = 262

 Score =  164 bits (417), Expect = 1e-47
 Identities = 80/217 (36%), Positives = 120/217 (55%), Gaps = 16/217 (7%)

Query: 236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPC 295
           G LL GPPG GKTL+AKAVATE ++ FLA+ G E +    G     +R++F +AR+ APC
Sbjct: 41  GALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPC 100

Query: 296 VVFFDELDSLAPRRGQEDQSSGVMDR--VVSQLLAEMDGVHTSQDVFILGATNRVDLLDP 353
           +V+ DE+D++  +R          +    ++QLL EMDG+ T+  V +L +TNR D+LD 
Sbjct: 101 IVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDG 160

Query: 354 AILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDS--LVHHFPSQMSGADI 411
           A++RPGRLD+ +++ L      +  + +  ++  KL+   +  S  L    P   SGADI
Sbjct: 161 ALMRPGRLDRHVFIDL-PTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPG-FSGADI 218

Query: 412 YSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA 448
            +IC+ A   A R   TS          V   +F  A
Sbjct: 219 ANICNEAALHAAREGHTS----------VHTLNFEYA 245

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score =  160 bits (408), Expect = 4e-46
 Identities = 82/256 (32%), Positives = 129/256 (50%), Gaps = 29/256 (11%)

Query: 202 PNVSWEDIGGLSKLKAEI------LSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA 255
           P V+++D+ G  + K E+      L      +        G+LL GPPG GKT +A+AVA
Sbjct: 35  PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA 94

Query: 256 TECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS 315
            E R+ F+   G + +  ++G     +R++F  A+  APC+VF DE+D++  +RG     
Sbjct: 95  GEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRG----- 149

Query: 316 SGV------MDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
           SGV       ++ ++QLL EMDG      + ++ ATNR D+LDPA+LRPGR D+ + +  
Sbjct: 150 SGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDA 209

Query: 370 YEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS 429
             D   +  +L+   R   L++DV L  L    P    GAD+ ++ + A   A R     
Sbjct: 210 -PDVKGREQILRIHARGKPLAEDVDLALLAKRTPG-FVGADLENLLNEAALLAARE---- 263

Query: 430 APQVKSAPVIVTMDDF 445
                     +TM D 
Sbjct: 264 ------GRRKITMKDL 273

>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* Length = 272

 Score =  160 bits (406), Expect = 5e-46
 Identities = 41/278 (14%), Positives = 90/278 (32%), Gaps = 28/278 (10%)

Query: 177 QKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRG-VNRTSGLKRS 235
                     D++  +    +     +     I         +L      V +T    R+
Sbjct: 5   HHHHHHGSTMDIKPAF--GTNQEDYASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRT 62

Query: 236 ---GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEEN-IRNVFLKARS 291
               +LL GPP +GKT +A  +A E    F+ +  P+ +  +   ++   ++ +F  A  
Sbjct: 63  PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYK 122

Query: 292 AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT-SQDVFILGATNRVDL 350
           +    V  D+++ L              + V+  LL  +       + + I+G T+R D+
Sbjct: 123 SQLSCVVVDDIERLLDYV---PIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDV 179

Query: 351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGAD 410
           L   +        +++V            L   +       D    ++      Q+ G  
Sbjct: 180 LQ-EMEMLNAFSTTIHVPNIATGEQ----LLEALELLGNFKDKERTTIAQ----QVKGKK 230

Query: 411 IYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA 448
           ++          I++++              +  FL  
Sbjct: 231 VWI--------GIKKLLMLIEMSLQMDPEYRVRKFLAL 260

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score =  159 bits (404), Expect = 8e-46
 Identities = 80/256 (31%), Positives = 138/256 (53%), Gaps = 29/256 (11%)

Query: 202 PNVSWEDIGGLSKLKAEI------LSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA 255
              ++ D+ G  + K E+      L       +  G    G+L+ GPPGTGKTL+AKA+A
Sbjct: 7   IKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIA 66

Query: 256 TECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS 315
            E ++ F  + G + +  ++G     +R++F +A+ AAPC++F DE+D++  +RG     
Sbjct: 67  GEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG----- 121

Query: 316 SGV------MDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
           +G+       ++ ++Q+L EMDG   ++ + ++ ATNR D+LDPA+LRPGR D+ + VGL
Sbjct: 122 AGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGL 181

Query: 370 YEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS 429
             D   +  +LK  +R+  L+ D+    +    P   SGAD+ ++ + A   A R     
Sbjct: 182 -PDVRGREQILKVHMRRVPLAPDIDAAIIARGTPG-FSGADLANLVNEAALFAARG---- 235

Query: 430 APQVKSAPVIVTMDDF 445
                    +V+M +F
Sbjct: 236 ------NKRVVSMVEF 245

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A* Length = 254

 Score =  159 bits (403), Expect = 9e-46
 Identities = 82/256 (32%), Positives = 129/256 (50%), Gaps = 29/256 (11%)

Query: 202 PNVSWEDIGGLSKLKAEI------LSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA 255
           P V+++D+ G  + K E+      L      +        G+LL GPPG GKT +A+AVA
Sbjct: 11  PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA 70

Query: 256 TECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS 315
            E R+ F+   G + +  ++G     +R++F  A+  APC+VF DE+D++  +RG     
Sbjct: 71  GEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRG----- 125

Query: 316 SGV------MDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
           SGV       ++ ++QLL EMDG      + ++ ATNR D+LDPA+LRPGR D+ + +  
Sbjct: 126 SGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDA 185

Query: 370 YEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS 429
             D   +  +L+   R   L++DV L  L    P    GAD+ ++ + A   A R     
Sbjct: 186 -PDVKGREQILRIHARGKPLAEDVDLALLAKRTPG-FVGADLENLLNEAALLAARE---- 239

Query: 430 APQVKSAPVIVTMDDF 445
                     +TM D 
Sbjct: 240 ------GRRKITMKDL 249

>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* Length = 268

 Score =  157 bits (400), Expect = 4e-45
 Identities = 82/253 (32%), Positives = 129/253 (50%), Gaps = 21/253 (8%)

Query: 202 PNVSWEDIGGLSKLKAEI------LSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA 255
           PNV ++D+ G  + K E+      L               G+LL GPPGTGKTL+AKAVA
Sbjct: 6   PNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVA 65

Query: 256 TECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS 315
            E  + F ++ G   +  ++G     +R++F  A+  AP ++F DE+D++   R      
Sbjct: 66  GEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVV 125

Query: 316 SGVMDR--VVSQLLAEMDGVHTSQD-VFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
           SG  +R   ++QLLAEMDG  +    V +L ATNR ++LDPA++RPGR D+ + V    D
Sbjct: 126 SGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDK-PD 184

Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ 432
              ++ +LK  ++  KL++DV+L  +       ++GAD+ +I + A   A R        
Sbjct: 185 FNGRVEILKVHIKGVKLANDVNLQEVAKLTAG-LAGADLANIINEAALLAGRN------- 236

Query: 433 VKSAPVIVTMDDF 445
                  V     
Sbjct: 237 ---NQKEVRQQHL 246

>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* Length = 476

 Score =  146 bits (372), Expect = 3e-39
 Identities = 76/216 (35%), Positives = 123/216 (56%), Gaps = 23/216 (10%)

Query: 236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPC 295
           G+LL GPPGTGKTL+A+AVA E  + F  + G + +  ++G     +R++F +A++ APC
Sbjct: 51  GILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPC 110

Query: 296 VVFFDELDSLAPRRGQEDQSSGVM------DRVVSQLLAEMDGVHTSQDVFILGATNRVD 349
           +VF DE+D++   RG     +G+       ++ ++QLL EMDG  + + + ++ ATNR D
Sbjct: 111 IVFIDEIDAVGRHRG-----AGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPD 165

Query: 350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGA 409
           +LDPA+LRPGR DK + V    D + +  +L+   R   L++DV+L+ +    P    GA
Sbjct: 166 ILDPALLRPGRFDKKIVVDP-PDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPG-FVGA 223

Query: 410 DIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDF 445
           D+ ++ + A   A R               +TM DF
Sbjct: 224 DLENLVNEAALLAARE----------GRDKITMKDF 249

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus} Length = 499

 Score =  145 bits (369), Expect = 1e-38
 Identities = 73/218 (33%), Positives = 114/218 (52%), Gaps = 27/218 (12%)

Query: 236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPC 295
           G+LL GPPG GKT +A+AVA E R+ F+   G + +  ++G     +R++F  A+  APC
Sbjct: 66  GVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPC 125

Query: 296 VVFFDELDSLAPRRG--------QEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNR 347
           +VF DE+D++  +RG        + +Q+       ++QLL EMDG      + ++ ATNR
Sbjct: 126 IVFIDEIDAVGRKRGSGVGGGNDEREQT-------LNQLLVEMDGFEKDTAIVVMAATNR 178

Query: 348 VDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMS 407
            D+LDPA+LRPGR D+ + +    D   +  +L+   R   L++DV L  L    P    
Sbjct: 179 PDILDPALLRPGRFDRQIAIDA-PDVKGREQILRIHARGKPLAEDVDLALLAKRTPG-FV 236

Query: 408 GADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDF 445
           GAD+ ++ + A   A R               +TM D 
Sbjct: 237 GADLENLLNEAALLAARE----------GRRKITMKDL 264

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Length = 309

 Score = 80.2 bits (197), Expect = 7e-17
 Identities = 47/271 (17%), Positives = 94/271 (34%), Gaps = 38/271 (14%)

Query: 206 WEDIGGLSKLKAEILST---------FRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVAT 256
             ++ GL  +K  I  T          + +          +   G PGTGKT +A  +A 
Sbjct: 30  DRELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAG 89

Query: 257 E-CRMNFLA------VKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR 309
              R+ ++       V   +L+ +YIG +    + V  +A      V+F DE   L    
Sbjct: 90  LLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAM---GGVLFIDEAYYLYRPD 146

Query: 310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD---LLDPAILRPGRLDKSLY 366
            + D         +  LL  M+       V + G  +R++     +P      R+   + 
Sbjct: 147 NERDY----GQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGFRS--RIAHHIE 200

Query: 367 VGLYE-DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMS------GADIYSICSNAW 419
              Y  + + ++       + ++++ +    +L  +   + +         I +    A 
Sbjct: 201 FPDYSDEELFEIAGHMLDDQNYQMTPEAE-TALRAYIGLRRNQPHFANARSIRNALDRAR 259

Query: 420 TRAIRRIIT--SAPQVKSAPVIVTMDDFLGA 448
            R   R+ T  S P    A   +  +D   +
Sbjct: 260 LRQANRLFTASSGPLDARALSTIAEEDIRAS 290

>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* Length = 456

 Score = 76.9 bits (189), Expect = 2e-15
 Identities = 52/251 (20%), Positives = 85/251 (33%), Gaps = 41/251 (16%)

Query: 194 DQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKA 253
             LD   +   +   + G    + E       + ++  +    +LL GPPGTGKT +A A
Sbjct: 24  LGLDESGLAKQAASGLVGQENAR-EACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALA 82

Query: 254 VATE--CRMNFLAVKGPELLNKYIGQSEENIRNVFLKA---RSAAPCVVFFDELDSLAPR 308
           +A E   ++ F  + G E+ +  I ++ E +   F +A   R      V+  E+  L P 
Sbjct: 83  IAQELGSKVPFCPMVGSEVYSTEIKKT-EVLMENFRRAIGLRIKETKEVYEGEVTELTPC 141

Query: 309 R------GQEDQSSGVM---------------DRVVSQLLAEMDGVHTSQDVFILGATNR 347
                  G     S V+                 +   L  E   V     ++I   +  
Sbjct: 142 ETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKE--RVEAGDVIYIEANSGA 199

Query: 348 VDLLDPAILRPGRLDKSL--YVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQ 405
           V             D     YV L +           V +K ++  DV+L  L       
Sbjct: 200 VKRQGRCDTYATEFDLEAEEYVPLPKGD---------VHKKKEIIQDVTLHDLDVANARP 250

Query: 406 MSGADIYSICS 416
             G DI S+  
Sbjct: 251 QGGQDILSMMG 261

>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 = 61.0 bits (147), Expect = 6e-10
 Identities = 64/408 (15%), Positives = 120/408 (29%), Gaps = 132/408 (32%)

Query: 30  HHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHK 89
           +   DI+ +    +  +    D  +   ++              +   E           
Sbjct: 16  YQYKDILSVFEDAFVDNFDCKDVQDMPKSI--------------LSKEEIDH-------- 53

Query: 90  KKLVLIRKQIQKLFLKTINVLPLTEPERRLLIQYQL---DCLGGDYGFDASLVEYLSSVT 146
              +++ K      L+    L L++ E       Q    + L  +Y F  S ++      
Sbjct: 54  ---IIMSKDAVSGTLRLFWTL-LSKQEE----MVQKFVEEVLRINYKFLMSPIKTEQRQP 105

Query: 147 SGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSW 206
           S   R  +    RL   N    Q   K ++ +    Q Y  L+                 
Sbjct: 106 SMMTRMYIEQRDRLYNDN----QVFAKYNVSRL---QPYLKLRQ---------------- 142

Query: 207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA----TECRMNF 262
                L +L+                    +L+ G  G+GKT +A  V      +C+M+F
Sbjct: 143 ----ALLELRPA----------------KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF 182

Query: 263 ----LAV---KGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS 315
               L +     PE +        E ++ +  +         +    D  +  + +    
Sbjct: 183 KIFWLNLKNCNSPETV-------LEMLQKLLYQIDPN-----WTSRSDHSSNIKLRIHSI 230

Query: 316 SGVMDRVVSQ------LLAEMDGVHTSQ--DVF-----ILGATNR----VDLLDPAILRP 358
              + R++        LL  +  V  ++  + F     IL  T R     D L  A    
Sbjct: 231 QAELRRLLKSKPYENCLLV-LLNVQNAKAWNAFNLSCKIL-LTTRFKQVTDFLSAATTTH 288

Query: 359 GRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQM 406
             LD    + L  D +  L +LK +        D     L    P ++
Sbjct: 289 ISLDHHS-MTLTPDEVKSL-LLKYL--------DCRPQDL----PREV 322

>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 Length = 516

 Score = 52.6 bits (126), Expect = 2e-07
 Identities = 25/83 (30%), Positives = 37/83 (44%), Gaps = 12/83 (14%)

Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFL---A--VKGPELLNKYIGQSEEN-------IRN 284
            +LYGPPG GKT  A  VA E   + L   A  V+   LLN  +  + +N         N
Sbjct: 80  AMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHN 139

Query: 285 VFLKARSAAPCVVFFDELDSLAP 307
              +  +    V+  DE+D ++ 
Sbjct: 140 EEAQNLNGKHFVIIMDEVDGMSG 162

>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B* 2dvw_B* Length = 83

 Score = 47.3 bits (113), Expect = 3e-07
 Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 11/77 (14%)

Query: 372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAP 431
           DR  +  +   +  K  LS++V L+  V   P ++SGADI SIC  +   A+R       
Sbjct: 2   DRRQKRLIFSTITSKMNLSEEVDLEDYVAR-PDKISGADINSICQESGMLAVRENRY--- 57

Query: 432 QVKSAPVIVTMDDFLGA 448
                  IV   DF  A
Sbjct: 58  -------IVLAKDFEKA 67

>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} PDB: 2dzo_B Length = 82

 Score = 46.2 bits (110), Expect = 6e-07
 Identities = 17/70 (24%), Positives = 28/70 (40%), Gaps = 11/70 (15%)

Query: 379 VLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPV 438
           +   +  K  L+ +  LDSL+      +SGA I +I   A  RA+R+             
Sbjct: 6   IFGTIASKMSLAPEADLDSLIIR-NDSLSGAVIAAIMQEAGLRAVRKNRY---------- 54

Query: 439 IVTMDDFLGA 448
           ++   D   A
Sbjct: 55  VILQSDLEEA 64

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 46.0 bits (110), Expect = 2e-05
 Identities = 20/76 (26%), Positives = 30/76 (39%), Gaps = 25/76 (32%)

Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLA-------VKGPELLNKYIGQSEENIRNVFLKA 289
           ++L+GPPGTGKT +A+ +A     +          VK               IR    +A
Sbjct: 53  MILWGPPGTGKTTLAEVIARYANADVERISAVTSGVK--------------EIREAIERA 98

Query: 290 RSAA----PCVVFFDE 301
           R         ++F DE
Sbjct: 99  RQNRNAGRRTILFVDE 114

>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 Length = 389

 Score = 44.0 bits (103), Expect = 7e-05
 Identities = 21/163 (12%), Positives = 43/163 (26%), Gaps = 33/163 (20%)

Query: 217 AEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE----CRMNFLAVKGPELLN 272
            ++        R  G       L G PGTGKT+  + +           F+ + G    N
Sbjct: 27  QQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRN 86

Query: 273 KY----------------IGQSEENIRNVFLKARSA--APCVVFFDELDSLAPRRGQEDQ 314
                              G S +    + ++          +  D+  +LAP       
Sbjct: 87  FTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFI 146

Query: 315 SSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILR 357
                       L +      +  + ++   +   +L+     
Sbjct: 147 R-----------LGQEADKLGAFRIALVIVGHNDAVLNNLDPS 178

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426} Length = 202

 Score = 42.8 bits (101), Expect = 7e-05
 Identities = 31/102 (30%), Positives = 41/102 (40%), Gaps = 19/102 (18%)

Query: 233 KRSGLLLYGPPGTGKTLIAKAVATE-CRMNF--LAVKGPELLNK----YIGQSEENIRNV 285
           K  GL L+G  G GKT +  A+A E  + N   L V  PEL  +       Q+     + 
Sbjct: 53  KMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKLDY 112

Query: 286 FLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLL 327
             K       V+  D+L       G E  SS V D V   +L
Sbjct: 113 IKKVP-----VLMLDDL-------GAEAMSSWVRDDVFGPIL 142

>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} Length = 226

 Score = 43.0 bits (102), Expect = 8e-05
 Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 25/84 (29%)

Query: 237 LLLYGPPGTGKTLIAKAVATE-----CRMNFLAVKGPELLNKYIGQSEEN----IRN--- 284
           LL  GPPGTGKT  A A+A +      R NF+       +N     S+E     +R+   
Sbjct: 41  LLFSGPPGTGKTATAIALARDLFGENWRDNFI------EMNA----SDERGIDVVRHKIK 90

Query: 285 VFLKARSAAPC---VVFFDELDSL 305
            F +          ++F DE D+L
Sbjct: 91  EFARTAPIGGAPFKIIFLDEADAL 114

>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} Length = 386

 Score = 43.5 bits (102), Expect = 1e-04
 Identities = 29/162 (17%), Positives = 54/162 (33%), Gaps = 41/162 (25%)

Query: 237 LLLYGPPGTGKTLIAKAVATE-----------CRMNFLAVKGPELLNKYIGQSEEN---- 281
           + +YG  GTGKT + K V ++             +N   +  P  +   + +S +     
Sbjct: 48  IFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPF 107

Query: 282 ---------IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG 332
                     R V       +  V+  DE+D+   +   +              L+ ++ 
Sbjct: 108 TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYK----------LSRINS 157

Query: 333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRI 374
                 +  +G TN V  +D        LD  +   L E+ I
Sbjct: 158 EVNKSKISFIGITNDVKFVD-------LLDPRVKSSLSEEEI 192

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3} Length = 308

 Score = 42.1 bits (99), Expect = 2e-04
 Identities = 24/106 (22%), Positives = 39/106 (36%), Gaps = 12/106 (11%)

Query: 226 VNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE--CRMNF--LAVKGPELLNKYIGQSEEN 281
           V +    ++ GL LYG  G GK+ +  A+A E   +       +  P             
Sbjct: 144 VEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAISNG 203

Query: 282 IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLL 327
                + A    P V+  D++       G E  +S V D V+  +L
Sbjct: 204 SVKEEIDAVKNVP-VLILDDI-------GAEQATSWVRDEVLQVIL 241

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens} Length = 86

 Score = 38.7 bits (91), Expect = 3e-04
 Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 11/64 (17%)

Query: 385 RKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDD 444
           RK  L+  ++L  +    P   SGA++  +C+ A   A+R             V VT +D
Sbjct: 25  RKMNLTRGINLRKIAELMPG-ASGAEVKGVCTEAGMYALRE----------RRVHVTQED 73

Query: 445 FLGA 448
           F  A
Sbjct: 74  FEMA 77

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens} Length = 78

 Score = 38.6 bits (91), Expect = 3e-04
 Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 11/64 (17%)

Query: 385 RKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDD 444
           RK  L+  ++L  +    P   SGA++  +C+ A   A+R               VT +D
Sbjct: 17  RKMNLTRGINLRKIAELMPG-ASGAEVKGVCTEAGMYALRERRV----------HVTQED 65

Query: 445 FLGA 448
           F  A
Sbjct: 66  FEMA 69

>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 Length = 327

 Score = 41.6 bits (98), Expect = 3e-04
 Identities = 24/79 (30%), Positives = 33/79 (41%), Gaps = 15/79 (18%)

Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEEN----IRNV---FLKA 289
           LL  GPPG GKT  A A+A E     L  +        +  S+E     IR     F + 
Sbjct: 49  LLFAGPPGVGKTTAALALARE-----LFGENWRHNFLELNASDERGINVIREKVKEFART 103

Query: 290 RSAAPC---VVFFDELDSL 305
           +        ++F DE D+L
Sbjct: 104 KPIGGASFKIIFLDEADAL 122

>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 Length = 319

 Score = 41.5 bits (98), Expect = 3e-04
 Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 25/84 (29%)

Query: 237 LLLYGPPGTGKTLIAKAVATE-----CRMNFLAVKGPELLNKYIGQSEEN----IRNV-- 285
           LL  GPPGTGKT  A A+A +      R NF+           +  S+E     +R+   
Sbjct: 41  LLFSGPPGTGKTATAIALARDLFGENWRDNFI----------EMNASDERGIDVVRHKIK 90

Query: 286 -FLKARSAAPC---VVFFDELDSL 305
            F +          ++F DE D+L
Sbjct: 91  EFARTAPIGGAPFKIIFLDEADAL 114

>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} Length = 384

 Score = 40.9 bits (95), Expect = 6e-04
 Identities = 31/166 (18%), Positives = 57/166 (34%), Gaps = 48/166 (28%)

Query: 237 LLLYGPPGTGKTLIAKAVATECR-----------------------------MNFLAVKG 267
            L  G  GTGKT ++K +  E                               ++ LA K 
Sbjct: 48  NLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKL 107

Query: 268 PELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLL 327
                   G +     +           +++ DE+D+L  RRG         D V+ QLL
Sbjct: 108 TGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGG--------DIVLYQLL 159

Query: 328 AEMDGVHTSQDVFILGATNRVDL---LDPAILRPGRLDKSLYVGLY 370
                  +  ++ ++  +N +++   ++P +L    L  S+    Y
Sbjct: 160 ------RSDANISVIMISNDINVRDYMEPRVL--SSLGPSVIFKPY 197

>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone, chaperone-protein binding complex; HET: DNA; 3.80A {Saccharomyces cerevisiae} PDB: 4a3v_B* Length = 88

 Score = 37.6 bits (88), Expect = 7e-04
 Identities = 14/70 (20%), Positives = 28/70 (40%), Gaps = 11/70 (15%)

Query: 379 VLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPV 438
           + +   +   +   +  + +    P+  +GA++ S+C+ A   AIR              
Sbjct: 9   IFRIHSKSMSVERGIRWELISRLCPN-STGAELRSVCTEAGMFAIRA----------RRK 57

Query: 439 IVTMDDFLGA 448
           + T  DFL A
Sbjct: 58  VATEKDFLKA 67

>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* Length = 180

 Score = 39.7 bits (93), Expect = 7e-04
 Identities = 20/81 (24%), Positives = 33/81 (40%), Gaps = 5/81 (6%)

Query: 226 VNRTSGLKRSGLLLYGPPGTGKT----LIAKAVATECRMNFLAVKGPELLNKYIGQSEEN 281
           V+  +  +  GL   G PG GKT       KA+  +  +        +L+ +     +E 
Sbjct: 30  VHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRLKHLMDEG 89

Query: 282 IRNVFLKARSAAPCVVFFDEL 302
               FLK    +P +V  D+L
Sbjct: 90  KDTKFLKTVLNSPVLV-LDDL 109

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	478
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	100.0
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	100.0
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	100.0
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	100.0
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	100.0
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	100.0
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	100.0
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	100.0
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	100.0
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	100.0
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	100.0
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	100.0
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	100.0
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	100.0
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	100.0
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	100.0
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	100.0
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	100.0
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	100.0
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	100.0
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	100.0
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.98
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.98
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.98
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.97
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.97
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.97
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.95
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.95
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.95
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.94
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.94
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.93
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.93
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.93
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.93
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.92
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.91
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.88
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.86
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.82
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.81
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.81
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.81
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.8
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.8
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.79
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.79
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.79
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.78
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.77
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.76
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.76
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.76
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.75
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.75
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.74
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.72
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.72
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.72
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.72
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.71
3pvs_A	447	Replication-associated recombination protein A; ma	99.71
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.71
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.7
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.68
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.67
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.67
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.67
3bos_A	242	Putative DNA replication factor; P-loop containing	99.67
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.66
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.65
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.65
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.65
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.64
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.64
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.64
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.64
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.64
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.63
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.63
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.63
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.63
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.62
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.62
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.61
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.6
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.6
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.59
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.58
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.58
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.58
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.58
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.57
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.57
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.55
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.53
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.53
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.49
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.47
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.46
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.45
3co5_A	143	Putative two-component system transcriptional RES	99.43
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.43
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.4
3kw6_A	78	26S protease regulatory subunit 8; structural geno	99.37
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.35
2krk_A	86	26S protease regulatory subunit 8; structural geno	99.34
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.33
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.32
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.31
2krk_A	86	26S protease regulatory subunit 8; structural geno	99.31
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	99.24
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	99.21
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	99.19
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	99.18
3kw6_A	78	26S protease regulatory subunit 8; structural geno	99.18
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.18
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.09
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.06
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.03
2dzn_B	82	26S protease regulatory subunit 6B homolog; ankyri	99.01
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	99.0
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	99.0
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.94
2dzn_B	82	26S protease regulatory subunit 6B homolog; ankyri	98.9
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.9
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.87
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.85
2qgz_A	308	Helicase loader, putative primosome component; str	98.83
2fna_A	357	Conserved hypothetical protein; structural genomic	98.82
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.8
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.8
3f8t_A	506	Predicted ATPase involved in replication control,	98.79
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.76
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.68
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	98.65
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.54
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.51
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	98.43
3bos_A	242	Putative DNA replication factor; P-loop containing	98.35
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	98.34
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.34
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	98.3
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.28
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.25
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.25
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	98.2
2r44_A	331	Uncharacterized protein; putative ATPase, structur	98.18
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.18
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.17
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.16
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.16
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.15
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.11
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.1
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.08
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.08
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	98.04
3pvs_A	447	Replication-associated recombination protein A; ma	98.03
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	97.99
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.98
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.97
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.95
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	97.85
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.83
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.82
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.8
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.8
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.79
3io5_A	333	Recombination and repair protein; storage dimer, i	97.79
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	97.79
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.78
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.76
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	97.74
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.73
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.69
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.65
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.63
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.63
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.59
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.56
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.55
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.54
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.54
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.53
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.52
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.52
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.5
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.49
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.49
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.47
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.47
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.47
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.44
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.42
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.41
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.38
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.36
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.35
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.34
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.31
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.31
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.31
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	97.31
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.3
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	97.29
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.27
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	97.27
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.25
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.25
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.25
1via_A	175	Shikimate kinase; structural genomics, transferase	97.25
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.22
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.22
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.21
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	97.19
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.18
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.17
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.14
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.13
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.13
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.11
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.1
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.09
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.07
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.07
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.06
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.06
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.05
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.04
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.04
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.03
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.03
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.02
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.01
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.01
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.0
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.99
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	96.99
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.99
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.99
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.99
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.98
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.97
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.96
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.96
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.95
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.95
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.94
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.93
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.93
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.91
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.91
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.88
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.87
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.85
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.84
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.83
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.81
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.81
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.81
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.78
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.78
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.77
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.74
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.74
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.74
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.73
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.72
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.71
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.7
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.67
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.65
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.65
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.64
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.63
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.63
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.58
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.58
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	96.57
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.55
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.54
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.54
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.51
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.49
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.48
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.44
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.43
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.43
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.4
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.39
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.39
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.37
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.36
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	96.34
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.33
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.32
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.31
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.31
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.29
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	96.27
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.25
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	96.25
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.24
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.21
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.21
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.21
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	96.2
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.15
3b6e_A	216	Interferon-induced helicase C domain-containing P;	96.15
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.15
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.14
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.13
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.1
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.09
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.05
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.05
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.04
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	96.03
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	96.01
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.01
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.0
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.0
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.99
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	95.97
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	95.97
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.95
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	95.94
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.91
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.9
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.88
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.87
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.87
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.86
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.84
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.83
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	95.81
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.81
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.81
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.79
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.73
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.73
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.73
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.72
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	95.69
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	95.67
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	95.65
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.65
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.63
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.63
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.6
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	95.53
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.47
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	95.45
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.45
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.44
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.41
2xxa_A	433	Signal recognition particle protein; protein trans	95.37
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	95.34
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.33
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	95.32
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	95.32
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.27
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.22
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.22
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	95.18
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	95.18
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.17
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.17
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	95.17
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.14
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.13
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.1
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.1
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.09
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.07
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.05
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	94.96
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.88
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	94.84
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.83
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	94.8
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	94.79
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	94.77
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	94.75
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.73
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.68
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	94.65
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.63
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.6
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	94.58
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	94.56
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.55
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.54
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	94.52
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	94.49
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.47
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.46
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	94.41
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	94.4
2og2_A	359	Putative signal recognition particle receptor; nuc	94.38
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.36
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	94.34
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.33
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.31
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.3
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.29
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.25
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.23
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.14
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	94.13
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.09
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.07
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.03
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	94.03
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.02
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	94.02
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.96
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	93.95
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	93.95
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.94
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.94
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.84
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.82
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	93.81
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	93.8
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	93.76
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	93.74
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.73
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.71
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	93.71
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.7
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.68
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.67
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.67
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.67
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.66
1g6h_A	257	High-affinity branched-chain amino acid transport	93.66
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.66
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	93.65
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.65
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	93.63
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.62
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.59
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.58
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	93.58
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.53
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	93.52
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.52
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.51
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.5
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.49
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	93.48
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.47
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.42
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.42
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.39
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	93.38
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	93.37
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.36
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	93.33
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	93.32
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	93.31
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	93.29
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	93.28
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	93.28
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.26
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.23
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.23
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	93.21
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	93.18
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	93.17
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	93.16
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.09
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	93.05
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	92.98
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	92.95
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	92.94
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	92.92
2wji_A	165	Ferrous iron transport protein B homolog; membrane	92.91
1nrj_B	218	SR-beta, signal recognition particle receptor beta	92.91
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	92.88
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	92.84
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	92.8
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	92.75
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	92.71
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	92.7
2hf9_A	226	Probable hydrogenase nickel incorporation protein	92.67
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	92.65
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.64
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	92.64
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.57
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.56
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	92.51
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	92.48
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	92.47
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	92.43
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	92.43

>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=100.00  E-value=2.9e-72  Score=602.01  Aligned_cols=427  Identities=35%  Similarity=0.554  Sum_probs=328.7

Q ss_pred             HHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCC
Q psy450           18 HLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQ   87 (478)
Q Consensus        18 ~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~   87 (478)
                      .++++|.++... +++.+|. .|++.+||||||||+|+|+++|          +++++|+.||++            ..+
T Consensus       273 ~l~sk~~gese~-~lr~lF~-~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~------------~~~  338 (806)
T 3cf2_A          273 EIMSKLAGESES-NLRKAFE-EAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGL------------KQR  338 (806)
T ss_dssp             HHHSSCTTHHHH-HHHHHHH-HHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHC------------CGG
T ss_pred             HhhcccchHHHH-HHHHHHH-HHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcc------------ccc
Confidence            345666666655 9999999 9999999999999999999875          789999999965            445


Q ss_pred             CcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHH
Q psy450           88 HKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLV  158 (478)
Q Consensus        88 ~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~  158 (478)
                      ++|+|||       +|||++|  |||++|+|+.||.++|.+||+.+++++  ++..++++ +.+|..|+||+|+||..+|
T Consensus       339 ~~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~--~~~~dvdl-~~lA~~T~GfsgaDL~~Lv  415 (806)
T 3cf2_A          339 AHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNM--KLADDVDL-EQVANETHGHVGADLAALC  415 (806)
T ss_dssp             GCEEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSS--EECTTCCH-HHHHHHCCSCCHHHHHHHH
T ss_pred             CCEEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCC--CCCcccCH-HHHHHhcCCCCHHHHHHHH
Confidence            6799998       9999999  999999999999999999999999887  56778888 9999999999999999999


Q ss_pred             HHHHHHHHHhhc--------------CCCCCCCHHHHHHHHHHhhhhcccCCCCCCCCCCCcccccCcHHHHHHHHHHHH
Q psy450          159 RLSVKNKMLKQG--------------INKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFR  224 (478)
Q Consensus       159 ~~a~~~a~~~~~--------------~~~~~it~~d~~~a~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~  224 (478)
                      ++|+..++.+..              .....++.+||..|+..++|+..+.. ....|+++|++++|++++|+.|.+.+.
T Consensus       416 ~eA~~~A~~r~~~~i~~~~~~~~~e~~~~~~v~~~Df~~Al~~~~ps~~r~~-~~~~p~v~w~diggl~~~k~~l~e~v~  494 (806)
T 3cf2_A          416 SEAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRET-VVEVPQVTWEDIGGLEDVKRELQELVQ  494 (806)
T ss_dssp             HHHHHHHHHHHHHHGGGTCCCCSHHHHHHCEECTTHHHHHHSSSSCCCCCCC-CCBCCCCCSTTCCSCHHHHHHHTTTTT
T ss_pred             HHHHHHHHHhccccccccccccchhhhccceeeHHHHHHHHHhCCCcccccc-cccCCCCCHHHhCCHHHHHHHHHHHHH
Confidence            999998875411              12456889999999999999876654 567899999999999999999999999


Q ss_pred             hhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEE
Q psy450          225 GVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVV  297 (478)
Q Consensus       225 ~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il  297 (478)
                      +|..      ..|.. ++++|||||||||||++|+++|++++.+|+.++++++.++|+|++++.++.+|..|+...||||
T Consensus       495 ~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~vGese~~vr~lF~~Ar~~~P~Ii  574 (806)
T 3cf2_A          495 YPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVL  574 (806)
T ss_dssp             TTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTTCSSCHHHHHHHHHHHHTTCSEEE
T ss_pred             hhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhccccchHHHHHHHHHHHHHHcCCcee
Confidence            8843      23444 8899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEcCCccccCCCCCC-CCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHH
Q psy450          298 FFDELDSLAPRRGQE-DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQ  376 (478)
Q Consensus       298 ~iDeid~l~~~~~~~-~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r  376 (478)
                      ||||+|.++++|+.. +...+..++++++||.+||++....+++||+|||+|+.||++++|||||++.|++++ |+.++|
T Consensus       575 fiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~l-Pd~~~R  653 (806)
T 3cf2_A          575 FFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPL-PDEKSR  653 (806)
T ss_dssp             ECSCGGGCC--------------CHHHHHHHHHHHSSCSSSSEEEECC-CCSSSSCHHHHSTTTSCCEEEC------CHH
T ss_pred             echhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCchhCCHhHcCCCcceEEEEECC-cCHHHH
Confidence            999999999988643 234456679999999999999888899999999999999999999999999999998 699999


Q ss_pred             HHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCC---------------CCCCCcccc
Q psy450          377 LGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ---------------VKSAPVIVT  441 (478)
Q Consensus       377 ~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~---------------~~~~~~~it  441 (478)
                      .+||+.++++.++..++++..||+.+ +||||+||.++|++|++.|+++.+.....               .......||
T Consensus       654 ~~il~~~l~~~~~~~~~dl~~la~~t-~g~SGadi~~l~~~A~~~a~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  732 (806)
T 3cf2_A          654 VAILKANLRKSPVAKDVDLEFLAKMT-NGFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIR  732 (806)
T ss_dssp             HHTTTTTSSCC--CCC-----------------CHHHHHHHHHHHHHHHHHC-----------------------CCC--
T ss_pred             HHHHHHHhcCCCCCCCCCHHHHHHhC-CCCCHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccCccccccccccccCccC
Confidence            99999999999999999999999987 89999999999999999999997643210               012234699


Q ss_pred             HHHHHhchhccCCCccccccccccccccc
Q psy450          442 MDDFLGACSLATAPDKFSQSVAPDNYSLS  470 (478)
Q Consensus       442 ~~d~~~A~~~~~~l~~~~ps~~~~~~~~~  470 (478)
                      ++||.+|      +++++||++++++..+
T Consensus       733 ~~df~~a------l~~~~pSvs~~~l~~y  755 (806)
T 3cf2_A          733 RDHFEEA------MRFARRSVSDNDIRKY  755 (806)
T ss_dssp             --CCTTT------C---------------
T ss_pred             HHHHHHH------HHhCCCCCCHHHHHHH
Confidence            9999999      9999999999887654

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.8e-48  Score=385.98  Aligned_cols=250  Identities=35%  Similarity=0.614  Sum_probs=227.3

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ....|+++|+||+|++++|+.|++.+.+|..      ..|.+ |+|+|||||||||||++|+++|++++.+|+.++++++
T Consensus       139 ~~~~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l  218 (405)
T 4b4t_J          139 VEKVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAEL  218 (405)
T ss_dssp             EECSCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGG
T ss_pred             ccCCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHh
Confidence            3456999999999999999999999999833      33555 8999999999999999999999999999999999999


Q ss_pred             hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC-chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS-SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      .++|.|++++.++.+|..|+..+||||||||+|.+++++..++.+ .....+++++|+.+||++....+++||+|||+|+
T Consensus       219 ~sk~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd  298 (405)
T 4b4t_J          219 VQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLD  298 (405)
T ss_dssp             SCSSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSS
T ss_pred             hccccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChh
Confidence            999999999999999999999999999999999999887654433 3355688999999999999889999999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      .||++++||||||..|++++ |+.++|.+||+.+++++++..++++..+|..+ +||||+||.++|++|++.|+++.   
T Consensus       299 ~LDpAllRpGRfD~~I~i~l-Pd~~~R~~Il~~~~~~~~l~~dvdl~~lA~~t-~G~SGADi~~l~~eA~~~Air~~---  373 (405)
T 4b4t_J          299 ILDPALLRPGRIDRKIEFPP-PSVAARAEILRIHSRKMNLTRGINLRKVAEKM-NGCSGADVKGVCTEAGMYALRER---  373 (405)
T ss_dssp             SSCHHHHSTTSSCCEEECCC-CCHHHHHHHHHHHHTTSBCCSSCCHHHHHHHC-CSCCHHHHHHHHHHHHHHHHHTT---
T ss_pred             hCCHhHcCCCcCceEEEcCC-cCHHHHHHHHHHHhcCCCCCccCCHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHcC---
Confidence            99999999999999999998 79999999999999999999999999999998 89999999999999999999863   


Q ss_pred             CCCCCCCCccccHHHHHhchhccCCCcccccccccc
Q psy450          430 APQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPD  465 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~  465 (478)
                             ...||++||..|      ++++.++..+.
T Consensus       374 -------~~~vt~~Df~~A------l~~v~~~~~~~  396 (405)
T 4b4t_J          374 -------RIHVTQEDFELA------VGKVMNKNQET  396 (405)
T ss_dssp             -------CSBCCHHHHHHH------HHHHHHHHTCC
T ss_pred             -------CCCcCHHHHHHH------HHHHhCccccc
Confidence                   557999999999      88887765443

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.6e-47  Score=379.71  Aligned_cols=251  Identities=36%  Similarity=0.604  Sum_probs=229.7

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhh------hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVN------RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~------~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ...|+++|+||+|++++|+.|.+.+.+|.      ...|.+ |+|+|||||||||||++|+++|++++.+|+.++++++.
T Consensus       174 ~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~  253 (437)
T 4b4t_I          174 DKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELI  253 (437)
T ss_dssp             ESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGC
T ss_pred             ccCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhh
Confidence            34689999999999999999999999874      334555 89999999999999999999999999999999999999


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCC-CchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ-SSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                      ++|.|++++.++.+|..|+..+||||||||+|.++++|..++. ......+.+++|+.++|++....+++||+|||+|+.
T Consensus       254 sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~  333 (437)
T 4b4t_I          254 QKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIET  333 (437)
T ss_dssp             CSSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTT
T ss_pred             hccCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhh
Confidence            9999999999999999999999999999999999998865433 233556888999999999988889999999999999


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      ||++++||||||..|++++ |+.++|.+||+.+++++++..++++..+|..+ +||||+||.++|++|++.|+++.    
T Consensus       334 LDpALlRpGRfD~~I~v~l-Pd~~~R~~Il~~~l~~~~l~~dvdl~~LA~~T-~GfSGADI~~l~~eA~~~Air~~----  407 (437)
T 4b4t_I          334 LDPALIRPGRIDRKILFEN-PDLSTKKKILGIHTSKMNLSEDVNLETLVTTK-DDLSGADIQAMCTEAGLLALRER----  407 (437)
T ss_dssp             CCTTSSCTTTEEEEECCCC-CCHHHHHHHHHHHHTTSCBCSCCCHHHHHHHC-CSCCHHHHHHHHHHHHHHHHHTT----
T ss_pred             cCHHHhcCCceeEEEEcCC-cCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhC-CCCCHHHHHHHHHHHHHHHHHcC----
Confidence            9999999999999999998 79999999999999999999999999999987 89999999999999999999874    


Q ss_pred             CCCCCCCccccHHHHHhchhccCCCcccccccccccc
Q psy450          431 PQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNY  467 (478)
Q Consensus       431 ~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~  467 (478)
                            ...||++||..|      ++++.|+.+++++
T Consensus       408 ------~~~It~eDf~~A------l~rv~~~~~~e~l  432 (437)
T 4b4t_I          408 ------RMQVTAEDFKQA------KERVMKNKVEENL  432 (437)
T ss_dssp             ------CSCBCHHHHHHH------HHHHHHHHCCCSS
T ss_pred             ------CCccCHHHHHHH------HHHHhCCCChhhH
Confidence                  457999999999      9999999877765

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.1e-46  Score=378.97  Aligned_cols=248  Identities=33%  Similarity=0.575  Sum_probs=227.1

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ...|+++|++|+|++++|+.|.+.+.+|..      ..|.+ |+|+|||||||||||++|+++|++++.+|+.++++++.
T Consensus       173 ~~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~  252 (434)
T 4b4t_M          173 DEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLV  252 (434)
T ss_dssp             ESSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGC
T ss_pred             CCCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhh
Confidence            456899999999999999999999988843      34655 89999999999999999999999999999999999999


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC-chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS-SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                      ++|.|.+++.++.+|..|+..+||||||||+|.++++|..+..+ .....+.+++|+..|+++....+++||+|||+|+.
T Consensus       253 ~~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~  332 (434)
T 4b4t_M          253 QMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDV  332 (434)
T ss_dssp             SSCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCC
T ss_pred             hcccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchh
Confidence            99999999999999999999999999999999999888654332 23456788999999999988889999999999999


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      ||++++||||||..|++++ |+.++|.+||+.+++++.+..++++..+|..+ .||||+||.++|++|++.|+++.    
T Consensus       333 LD~AllRpGRfD~~I~i~l-Pd~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t-~G~sGADi~~l~~eA~~~a~r~~----  406 (434)
T 4b4t_M          333 LDPALLRSGRLDRKIEFPL-PSEDSRAQILQIHSRKMTTDDDINWQELARST-DEFNGAQLKAVTVEAGMIALRNG----  406 (434)
T ss_dssp             CCTTTCSTTSEEEEEECCC-CCHHHHHHHHHHHHHHSCBCSCCCHHHHHHHC-SSCCHHHHHHHHHHHHHHHHHHT----
T ss_pred             cCHhHhcCCceeEEEEeCC-cCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhC-CCCCHHHHHHHHHHHHHHHHHcC----
Confidence            9999999999999999998 79999999999999999999999999999997 89999999999999999999874    


Q ss_pred             CCCCCCCccccHHHHHhchhccCCCccccccccc
Q psy450          431 PQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAP  464 (478)
Q Consensus       431 ~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~  464 (478)
                            ...||++||.+|      +++++|+.+.
T Consensus       407 ------~~~i~~~Df~~A------l~~v~~~~~~  428 (434)
T 4b4t_M          407 ------QSSVKHEDFVEG------ISEVQARKSK  428 (434)
T ss_dssp             ------CSSBCHHHHHHH------HHSCSSSCCC
T ss_pred             ------CCCcCHHHHHHH------HHHHhCCCCc
Confidence                  457999999999      9999998764

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=5.6e-46  Score=374.15  Aligned_cols=247  Identities=35%  Similarity=0.556  Sum_probs=224.9

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      ..|+++|+||+|++++|+.|.+.+.+|..      ..|.+ |+|+|||||||||||++|+++|++++.+|+.++++++.+
T Consensus       174 ~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~s  253 (437)
T 4b4t_L          174 EQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVD  253 (437)
T ss_dssp             ESCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCC
T ss_pred             cCCCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhcc
Confidence            35899999999999999999999999743      34555 899999999999999999999999999999999999999


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCC-CchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCC
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ-SSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLL  351 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~l  351 (478)
                      +|.|+++..++.+|..|+...||||||||+|.++++|.+.+. ......+++++||.+||++....+++||+|||+|+.|
T Consensus       254 k~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~L  333 (437)
T 4b4t_L          254 KYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTL  333 (437)
T ss_dssp             SSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSS
T ss_pred             ccchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhh
Confidence            999999999999999999999999999999999988855443 3345567889999999999888899999999999999


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCC
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAP  431 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~  431 (478)
                      |++++||||||..|++++ |+.++|.+||+.+++++....++++..+|..+ +||||+||.++|++|++.|+++.     
T Consensus       334 DpAllRpGRfD~~I~i~l-Pd~~~R~~Il~~~~~~~~~~~d~dl~~lA~~t-~G~sGADi~~l~~eA~~~air~~-----  406 (437)
T 4b4t_L          334 DPALLRPGRLDRKVEIPL-PNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMS-DGFNGADIRNCATEAGFFAIRDD-----  406 (437)
T ss_dssp             CTTTTSTTSEEEEECCCC-CCHHHHHHHHHHHHHTSCBCSCCCHHHHHHTC-CSCCHHHHHHHHHHHHHHHHHTT-----
T ss_pred             CHHHhCCCccceeeecCC-cCHHHHHHHHHHHhcCCCCCcccCHHHHHHhC-CCCCHHHHHHHHHHHHHHHHHcC-----
Confidence            999999999999999998 79999999999999999999999999999987 89999999999999999999863     


Q ss_pred             CCCCCCccccHHHHHhchhccCCCccccccccc
Q psy450          432 QVKSAPVIVTMDDFLGACSLATAPDKFSQSVAP  464 (478)
Q Consensus       432 ~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~  464 (478)
                           ...||.+||..|      ++++.|+...
T Consensus       407 -----~~~i~~~d~~~A------l~~v~~~~k~  428 (437)
T 4b4t_L          407 -----RDHINPDDLMKA------VRKVAEVKKL  428 (437)
T ss_dssp             -----CSSBCHHHHHHH------HHHHHHTCC-
T ss_pred             -----CCCCCHHHHHHH------HHHHHhccCc
Confidence                 447999999999      8888887543

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=6.3e-46  Score=371.77  Aligned_cols=246  Identities=32%  Similarity=0.572  Sum_probs=224.5

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhh------hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVN------RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~------~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      ..|+++|+||+|++++|+.|++.+.+|.      ...|.+ |+|+|||||||||||++|+++|++++.+|+.++++++.+
T Consensus       202 e~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~s  281 (467)
T 4b4t_H          202 EKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQ  281 (467)
T ss_dssp             SSCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCC
T ss_pred             CCCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhc
Confidence            5689999999999999999999998873      334555 999999999999999999999999999999999999999


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC-chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCC
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS-SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLL  351 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~l  351 (478)
                      +|+|++++.++.+|..|+..+||||||||+|.++++|+..+.+ .....+.+++++.+|++.....+++||+|||+|+.|
T Consensus       282 k~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~L  361 (467)
T 4b4t_H          282 KYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTL  361 (467)
T ss_dssp             CSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTSB
T ss_pred             ccCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCcccC
Confidence            9999999999999999999999999999999999888654332 334567889999999999888999999999999999


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCC
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAP  431 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~  431 (478)
                      |++++|||||+..|++++ |+.++|.+||+.+++++.+..++++..||+.+ .||||+||.++|++|++.|+++.     
T Consensus       362 DpALlRpGRFD~~I~i~l-Pd~~~R~~Ilk~~l~~~~l~~dvdl~~LA~~T-~GfSGADI~~l~~eAa~~Air~~-----  434 (467)
T 4b4t_H          362 DPALLRPGRIDRKVEFSL-PDLEGRANIFRIHSKSMSVERGIRWELISRLC-PNSTGAELRSVCTEAGMFAIRAR-----  434 (467)
T ss_dssp             CHHHHSTTTCCEEECCCC-CCHHHHHHHHHHHHTTSCBCSSCCHHHHHHHC-CSCCHHHHHHHHHHHHHHHHHHT-----
T ss_pred             ChhhhccccccEEEEeCC-cCHHHHHHHHHHHhcCCCCCCCCCHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHcC-----
Confidence            999999999999999998 79999999999999999999999999999988 89999999999999999999874     


Q ss_pred             CCCCCCccccHHHHHhchhccCCCcccccccc
Q psy450          432 QVKSAPVIVTMDDFLGACSLATAPDKFSQSVA  463 (478)
Q Consensus       432 ~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~  463 (478)
                           ...||++||..|      ++++.++..
T Consensus       435 -----~~~it~~Df~~A------l~kV~~g~~  455 (467)
T 4b4t_H          435 -----RKVATEKDFLKA------VDKVISGYK  455 (467)
T ss_dssp             -----CSSBCHHHHHHH------HHHHHHHHC
T ss_pred             -----CCccCHHHHHHH------HHHHhcCcc
Confidence                 457999999999      888877654

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=7.1e-46  Score=372.90  Aligned_cols=254  Identities=36%  Similarity=0.597  Sum_probs=227.4

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ...|+++|+|++|++++|+.|.+.+.+|..      ..|.+ |+|+|||||||||||++|+++|++++.+|+.++++++.
T Consensus       164 ~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~  243 (428)
T 4b4t_K          164 NEKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFV  243 (428)
T ss_dssp             ESSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTC
T ss_pred             CCCCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhh
Confidence            346889999999999999999999998743      34655 89999999999999999999999999999999999999


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCC-CchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ-SSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                      ++|.|+++..++.+|..|+..+||||||||+|.+++.+..... ......+++++|+.+||++....+++||+|||+|+.
T Consensus       244 ~~~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN~~~~  323 (428)
T 4b4t_K          244 HKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADT  323 (428)
T ss_dssp             CSSCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEESCSSS
T ss_pred             ccccchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhh
Confidence            9999999999999999999999999999999999988754433 334567899999999999988899999999999999


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      +|++++||||||..|++|.+|+.++|..||+.+++++++..++++..+|..+ +||||+||.++|++|++.|+++.    
T Consensus       324 LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~dl~~lA~~t-~G~sgadi~~l~~eA~~~a~r~~----  398 (428)
T 4b4t_K          324 LDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRN-DSLSGAVIAAIMQEAGLRAVRKN----  398 (428)
T ss_dssp             CCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCCHHHHHHHT-TTCCHHHHHHHHHHHHHHHHHTT----
T ss_pred             cChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHCC----
Confidence            9999999999999999974479999999999999999999999999999998 89999999999999999999874    


Q ss_pred             CCCCCCCccccHHHHHhchhccCCCcc-cccccccccccc
Q psy450          431 PQVKSAPVIVTMDDFLGACSLATAPDK-FSQSVAPDNYSL  469 (478)
Q Consensus       431 ~~~~~~~~~it~~d~~~A~~~~~~l~~-~~ps~~~~~~~~  469 (478)
                            ...||++||.+|      +.+ ++++.+.+++.+
T Consensus       399 ------~~~i~~~d~~~A------~~~~~~~~~~~~~~d~  426 (428)
T 4b4t_K          399 ------RYVILQSDLEEA------YATQVKTDNTVDKFDF  426 (428)
T ss_dssp             ------CSSBCHHHHHHH------HHHHSCSCCCSSCCCS
T ss_pred             ------CCCCCHHHHHHH------HHHhhCccCCccHhhh
Confidence                  457999999999      765 466666665543

>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=100.00  E-value=1.3e-39  Score=349.52  Aligned_cols=253  Identities=40%  Similarity=0.645  Sum_probs=224.8

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ...|.++|++|+|++++++.|++.+.+|..      ..|.. |+|+|||||||||||++|+++|++++.+++.++++++.
T Consensus       196 ~~~~~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~  275 (806)
T 3cf2_A          196 ESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  275 (806)
T ss_dssp             CCSSSCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHH
T ss_pred             ccCCCCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhh
Confidence            346789999999999999999999988743      33444 89999999999999999999999999999999999999


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCC
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLL  351 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~l  351 (478)
                      +++.|+++..++.+|..|+...||||||||+|.+++++++..  ....++++++|+..|+++....+++||++||+|+.+
T Consensus       276 sk~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~--~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~L  353 (806)
T 3cf2_A          276 SKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH--GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSI  353 (806)
T ss_dssp             SSCTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCC--CTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTS
T ss_pred             cccchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCC--ChHHHHHHHHHHHHHhcccccCCEEEEEecCChhhc
Confidence            999999999999999999999999999999999999886543  334578999999999999888899999999999999


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCC
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAP  431 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~  431 (478)
                      |++++|+|||++.|++++ |+.++|.+||+.++++..+..++++..+|.++ .||+|+||.++|++|+..|++|......
T Consensus       354 D~ALrR~GRFd~~I~i~~-Pd~~~R~~IL~~~l~~~~~~~dvdl~~lA~~T-~GfsgaDL~~Lv~eA~~~A~~r~~~~i~  431 (806)
T 3cf2_A          354 DPALRRFGRFDREVDIGI-PDATGRLEILQIHTKNMKLADDVDLEQVANET-HGHVGADLAALCSEAALQAIRKKMDLID  431 (806)
T ss_dssp             CTTTTSTTSSCEEEECCC-CCHHHHHHHHHHTCSSSEECTTCCHHHHHHHC-CSCCHHHHHHHHHHHHHHHHHHHHHHGG
T ss_pred             CHHHhCCcccceEEecCC-CCHHHHHHHHHHHhcCCCCCcccCHHHHHHhc-CCCCHHHHHHHHHHHHHHHHHhcccccc
Confidence            999999999999999998 79999999999999999999999999999998 8999999999999999999999764321


Q ss_pred             CC-------CCCCccccHHHHHhchhccCCCcccccc
Q psy450          432 QV-------KSAPVIVTMDDFLGACSLATAPDKFSQS  461 (478)
Q Consensus       432 ~~-------~~~~~~it~~d~~~A~~~~~~l~~~~ps  461 (478)
                      ..       ......|+++||..|      ++.++|+
T Consensus       432 ~~~~~~~~e~~~~~~v~~~Df~~A------l~~~~ps  462 (806)
T 3cf2_A          432 LEDETIDAEVMNSLAVTMDDFRWA------LSQSNPS  462 (806)
T ss_dssp             GTCCCCSHHHHHHCEECTTHHHHH------HSSSSCC
T ss_pred             ccccccchhhhccceeeHHHHHHH------HHhCCCc
Confidence            10       012456899999999      7666665

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=100.00  E-value=3.8e-38  Score=302.43  Aligned_cols=259  Identities=44%  Similarity=0.763  Sum_probs=203.4

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      ..|+++|++++|++++|+.|.+.+.++..      ..+.. ++|++|+||||||||++++++|..++.+++.+++.++.+
T Consensus         3 ~~~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~   82 (274)
T 2x8a_A            3 TVPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLN   82 (274)
T ss_dssp             ---------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCS
T ss_pred             CCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHh
Confidence            46889999999999999999998877632      33444 788999999999999999999999999999999999988


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCC
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD  352 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld  352 (478)
                      .+.+..+..++.+|+.+....|+++++||+|.+.+.++..  ......++.++++..|++...+..++++++||+|+.+|
T Consensus        83 ~~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~--~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD  160 (274)
T 2x8a_A           83 MYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDR--ETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIID  160 (274)
T ss_dssp             STTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC-----------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSC
T ss_pred             hhhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCC--cchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCC
Confidence            8888899999999999988899999999999988665322  11223467889999999988888899999999999999


Q ss_pred             ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc---CCCCCCCCHHHHHHhc-CCCCCHHHHHHHHHHHHHHHHHHHHh
Q psy450          353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK---FKLSDDVSLDSLVHHF-PSQMSGADIYSICSNAWTRAIRRIIT  428 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~---~~~~~~~~~~~la~~~-~~~~sg~di~~l~~~a~~~a~~r~~~  428 (478)
                      ++++|||||+..|++++ |+.++|.+||+.++++   .....++++..++..+ ++||||+||.++|++|+..|+++...
T Consensus       161 ~al~r~gRfd~~i~~~~-P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~~~~~~g~sgadl~~l~~~a~~~a~~~~~~  239 (274)
T 2x8a_A          161 PAILRPGRLDKTLFVGL-PPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQEMA  239 (274)
T ss_dssp             HHHHSTTSSCEEEECCS-CCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHTCSGGGSCCHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HhhcCcccCCeEEEeCC-cCHHHHHHHHHHHHhcccCCCCccccCHHHHHHhhccCCcCHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999998 7999999999998854   3456788999999864 36999999999999999999988653


Q ss_pred             cCCC-CCCCCccccHHHHHhchhccCCCcccccccccccc
Q psy450          429 SAPQ-VKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNY  467 (478)
Q Consensus       429 ~~~~-~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~  467 (478)
                      .... .......||++||.+|      +++++||++.++.
T Consensus       240 ~~~~~~~~~~~~i~~~df~~a------l~~~~ps~~~~~~  273 (274)
T 2x8a_A          240 RQKSGNEKGELKVSHKHFEEA------FKKVRSSISKKDQ  273 (274)
T ss_dssp             ----------CCBCHHHHHHH------HTTCCCCC-----
T ss_pred             hccccccccCCeecHHHHHHH------HHHhcCCCChhhc
Confidence            3211 1123457999999999      9999999988764

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=100.00  E-value=2.5e-37  Score=303.97  Aligned_cols=258  Identities=31%  Similarity=0.526  Sum_probs=221.9

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhhC------CCCCceEEEeCCCCChHHHHHHHHHHHh-CCcEEEEechhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTS------GLKRSGLLLYGPPGTGKTLIAKAVATEC-RMNFLAVKGPELLN  272 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~------~~~~~~iLl~Gp~GtGKT~la~~la~~~-~~~~~~v~~~~l~~  272 (478)
                      ..|+.+|++|+|++.+|+.|.+.+.++...+      ..+++++||+||||||||++|+++|+++ +.+++.++++++.+
T Consensus         5 ~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~   84 (322)
T 1xwi_A            5 ERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVS   84 (322)
T ss_dssp             ECCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCC
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHh
Confidence            4688999999999999999999998874432      2236899999999999999999999999 89999999999999


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC-CCCeEEEEEcCCCCCC
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT-SQDVFILGATNRVDLL  351 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~v~vI~ttn~~~~l  351 (478)
                      .+.|.++..++.+|..++...|+||||||+|.+.+.++..  ......++.++++..++++.. ..+++||++||+|+.+
T Consensus        85 ~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~--~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~l  162 (322)
T 1xwi_A           85 KWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSEN--ESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVL  162 (322)
T ss_dssp             SSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSC--CTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTS
T ss_pred             hhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccc--cchHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccC
Confidence            9999999999999999999999999999999999877543  334557889999999998753 5689999999999999


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      |++++|  ||+..+++++ |+.++|..|++.++++.+.. .+.++..++..+ .||+|+||..+|++|++.|+++.....
T Consensus       163 d~al~r--Rf~~~i~i~~-P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t-~G~sgadl~~l~~~A~~~a~r~~~~~~  238 (322)
T 1xwi_A          163 DSAIRR--RFEKRIYIPL-PEPHARAAMFKLHLGTTQNSLTEADFRELGRKT-DGYSGADISIIVRDALMQPVRKVQSAT  238 (322)
T ss_dssp             CHHHHH--TCCEEEECCC-CCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTC-TTCCHHHHHHHHHHHHTHHHHHHHHCS
T ss_pred             CHHHHh--hcCeEEEeCC-cCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHHHHhhh
Confidence            999999  9999999997 69999999999999877654 456788999887 899999999999999999999986431


Q ss_pred             CC------------------------------------C---CCCCccccHHHHHhchhccCCCcccccccccccccc
Q psy450          431 PQ------------------------------------V---KSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSL  469 (478)
Q Consensus       431 ~~------------------------------------~---~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~  469 (478)
                      ..                                    .   .....+||++||..|      +++++||++++++..
T Consensus       239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~df~~a------l~~~~ps~~~~~~~~  310 (322)
T 1xwi_A          239 HFKKVRGPSRADPNHLVDDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMSDMLRS------LSNTKPTVNEHDLLK  310 (322)
T ss_dssp             EEEEEEEECSSCTTSEEEEEEEECCSSSTTEEECCGGGSCGGGBCCCCBCHHHHHHH------HHTCCCSCCHHHHHH
T ss_pred             hhhhhccccccccccccccccccccccccchhhccccccccccccCCCcCHHHHHHH------HHhCCCCCCHHHHHH
Confidence            00                                    0   001247999999999      999999999987654

>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=100.00  E-value=5.3e-37  Score=299.22  Aligned_cols=263  Identities=47%  Similarity=0.773  Sum_probs=224.8

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ...|..+|++++|++.+++.|.+.+.++..      ..+.. +.++||+||||||||++|+++|++++.+++.++++++.
T Consensus         7 ~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~   86 (301)
T 3cf0_A            7 VEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELL   86 (301)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHH
T ss_pred             ccCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHH
Confidence            457889999999999999999999988632      22434 78899999999999999999999999999999999999


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCC-CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED-QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                      +.+.|.++..++.+|..+....|++|||||+|.+.+.++... ...+...+++++++..++++....+++||+|||+++.
T Consensus        87 ~~~~g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn~~~~  166 (301)
T 3cf0_A           87 TMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDI  166 (301)
T ss_dssp             HHHHTTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEESCGGG
T ss_pred             hhhcCchHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEecCCccc
Confidence            999999999999999999999999999999999986653221 1223345788999999998877788999999999999


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      +|++++|+|||+..+++++ |+.++|.+|++.++++.++..++++..++..+ .||+|+||.++|++|+..|+++.....
T Consensus       167 ld~al~r~gRf~~~i~i~~-p~~~~r~~il~~~l~~~~~~~~~~~~~la~~~-~g~sg~dl~~l~~~a~~~a~~~~~~~~  244 (301)
T 3cf0_A          167 IDPAILRPGRLDQLIYIPL-PDEKSRVAILKANLRKSPVAKDVDLEFLAKMT-NGFSGADLTEICQRACKLAIRESIESE  244 (301)
T ss_dssp             SCGGGGSTTSSCEEEECCC-CCHHHHHHHHHHHHTTSCBCSSCCHHHHHHTC-SSCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cChHHhcCCccceEEecCC-cCHHHHHHHHHHHHccCCCCccchHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999997 68999999999999988888888999999876 899999999999999999998875321


Q ss_pred             CC---------C------CCCCccccHHHHHhchhccCCCcccccccccccccc
Q psy450          431 PQ---------V------KSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSL  469 (478)
Q Consensus       431 ~~---------~------~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~  469 (478)
                      ..         .      ......|+.+||.+|      +++++||++++++..
T Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~a------l~~~~~s~~~~~~~~  292 (301)
T 3cf0_A          245 IRRERERQTNPSAMEVEEDDPVPEIRRDHFEEA------MRFARRSVSDNDIRK  292 (301)
T ss_dssp             C--------------------CCCBCHHHHHHH------HTTCCCSSCHHHHHH
T ss_pred             hhhhhhcccccccccccccccCCccCHHHHHHH------HHHcCCCCCHHHHHH
Confidence            10         0      011247999999999      999999999877653

>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=100.00  E-value=3.9e-36  Score=295.96  Aligned_cols=258  Identities=33%  Similarity=0.519  Sum_probs=219.0

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhC------CCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTS------GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~------~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      ...|+.+|++++|++.+++.|.+.+.++...+      ..+++++||+||||||||++|+++|++++.+++.++++++.+
T Consensus        10 ~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~   89 (322)
T 3eie_A           10 SEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVS   89 (322)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHT
T ss_pred             ecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhh
Confidence            45788999999999999999999998774322      233789999999999999999999999999999999999999


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-CCCCeEEEEEcCCCCCC
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-TSQDVFILGATNRVDLL  351 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-~~~~v~vI~ttn~~~~l  351 (478)
                      .+.|.++..++.+|..++...|+||||||+|.+.++++..  ......++.+.++..+++.. ...+++||+|||+|+.+
T Consensus        90 ~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~--~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~~~~l  167 (322)
T 3eie_A           90 KWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG--ESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQL  167 (322)
T ss_dssp             TTGGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC--------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESCGGGS
T ss_pred             cccchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCC--cchHHHHHHHHHHHHhccccccCCceEEEEecCChhhC
Confidence            9999999999999999999999999999999999876433  22344688899999999874 45689999999999999


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      |+++++  ||+..+++++ |+.++|..|++.++++.... .+.++..++..+ .||+|+||.++|++|+..|+++.....
T Consensus       168 d~al~~--Rf~~~i~~~~-p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t-~g~sg~di~~l~~~a~~~a~r~~~~~~  243 (322)
T 3eie_A          168 DSAIRR--RFERRIYIPL-PDLAARTTMFEINVGDTPCVLTKEDYRTLGAMT-EGYSGSDIAVVVKDALMQPIRKIQSAT  243 (322)
T ss_dssp             CHHHHH--HCCEEEECCC-CCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTT-TTCCHHHHHHHHHHHTTHHHHHHHHCE
T ss_pred             CHHHHc--ccCeEEEeCC-CCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHHHhhhh
Confidence            999999  9999999998 79999999999999877644 456688899887 899999999999999999999986531


Q ss_pred             CC---------------------------------CCCCCccccHHHHHhchhccCCCccccccccccccc
Q psy450          431 PQ---------------------------------VKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYS  468 (478)
Q Consensus       431 ~~---------------------------------~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~  468 (478)
                      ..                                 .......||++||.+|      +++++||++.+++.
T Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~it~~df~~a------l~~~~ps~~~~~~~  308 (322)
T 3eie_A          244 HFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKA------IKSTRPTVNEDDLL  308 (322)
T ss_dssp             EEEECC----CCCCEEECCSSCTTEEEEEGGGSCSSCBCCCCCCHHHHHHH------HHHSCCSSCTTHHH
T ss_pred             hhhhhccccccccccccccccccccccccccccccccccCCCCCHHHHHHH------HHhcCCCCCHHHHH
Confidence            00                                 0012356999999999      99999999987654

>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=100.00  E-value=2e-35  Score=294.31  Aligned_cols=260  Identities=33%  Similarity=0.511  Sum_probs=211.5

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhhC------CCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRTS------GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~------~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ....|..+|++|+|++.+++.|.+.+.++...+      ..+++++||+||||||||++|+++|++++.+++.++++++.
T Consensus        42 ~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~  121 (355)
T 2qp9_X           42 LSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV  121 (355)
T ss_dssp             -----CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHH
T ss_pred             cccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHh
Confidence            345688999999999999999999988763321      23368899999999999999999999999999999999999


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC-CCCeEEEEEcCCCCC
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT-SQDVFILGATNRVDL  350 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~v~vI~ttn~~~~  350 (478)
                      +.+.|.++..++.+|..++...|+||||||+|.+.+.++..  ......++.++|+..++++.. ..+++||++||+|+.
T Consensus       122 ~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~--~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~~~~  199 (355)
T 2qp9_X          122 SKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG--ESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQ  199 (355)
T ss_dssp             SCC---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC--------CTHHHHHHHHHHHHHHHCC---CCEEEEEEESCGGG
T ss_pred             hhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCC--cchHHHHHHHHHHHHhhcccccCCCeEEEeecCCccc
Confidence            99999999999999999999999999999999999876433  334557888999999987754 467999999999999


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      ++++++|  ||+..+++++ |+.++|..|++.++++.+.. .+.++..|+..+ .||+|+||.++|++|+..|+++....
T Consensus       200 ld~al~r--Rf~~~i~i~~-P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t-~G~sg~dl~~l~~~A~~~a~~~~~~~  275 (355)
T 2qp9_X          200 LDSAIRR--RFERRIYIPL-PDLAARTTMFEINVGDTPSVLTKEDYRTLGAMT-EGYSGSDIAVVVKDALMQPIRKIQSA  275 (355)
T ss_dssp             SCHHHHH--TCCEEEECCC-CCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHT-TTCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHc--ccCEEEEeCC-cCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999  9999999997 79999999999999877643 456788999987 89999999999999999999987542


Q ss_pred             CCC---------------------------------CCCCCccccHHHHHhchhccCCCcccccccccccccc
Q psy450          430 APQ---------------------------------VKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSL  469 (478)
Q Consensus       430 ~~~---------------------------------~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~  469 (478)
                      ...                                 ......+||++||..|      +++++||++++++..
T Consensus       276 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~df~~A------l~~~~ps~~~~~~~~  342 (355)
T 2qp9_X          276 THFKDVSTEDDETRKLTPSSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKA------IKSTRPTVNEDDLLK  342 (355)
T ss_dssp             SEEEECCC-----CCEEEECTTSSSEEECCGGGSCGGGBCCCCBCHHHHHHH------HHHSCCSSCHHHHHH
T ss_pred             hhhhhhccccccccccCcCCccccchhhcccccccccccccCCccHHHHHHH------HHHcCCCCCHHHHHH
Confidence            100                                 0012346999999999      999999999887643

>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=100.00  E-value=4.4e-35  Score=300.15  Aligned_cols=260  Identities=31%  Similarity=0.516  Sum_probs=213.6

Q ss_pred             CCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCC------CCCceEEEeCCCCChHHHHHHHHHHHh-CCcEEEEechhh
Q psy450          198 APSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSG------LKRSGLLLYGPPGTGKTLIAKAVATEC-RMNFLAVKGPEL  270 (478)
Q Consensus       198 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~------~~~~~iLl~Gp~GtGKT~la~~la~~~-~~~~~~v~~~~l  270 (478)
                      ....|..+|++++|++.+++.|.+.+.++...+.      .+++++||+||||||||++|+++|+++ +.+|+.++++++
T Consensus       125 ~~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l  204 (444)
T 2zan_A          125 VIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDL  204 (444)
T ss_dssp             BCCCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC--
T ss_pred             eccCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHH
Confidence            3457889999999999999999999987743322      236899999999999999999999999 899999999999


Q ss_pred             hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC-CCCeEEEEEcCCCC
Q psy450          271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT-SQDVFILGATNRVD  349 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~v~vI~ttn~~~  349 (478)
                      .+.+.|.++..++.+|..++...|+||||||+|.+.+.+...  ......++.++|+..++++.. ..+++||+|||+|+
T Consensus       205 ~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~--~~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn~~~  282 (444)
T 2zan_A          205 VSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSEN--ESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPW  282 (444)
T ss_dssp             -------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCC--CCGGGHHHHHHHHTTTTCSSCCCSSCEEEEEESCGG
T ss_pred             HhhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCc--cccHHHHHHHHHHHHHhCcccCCCCEEEEecCCCcc
Confidence            999999999999999999999999999999999998876543  334457889999999998753 56899999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHh
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIIT  428 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~  428 (478)
                      .++++++|  ||+..+++++ |+.++|..|++.++++.+.. .+.++..|+..+ .||+|+||..+|++|+..|+++...
T Consensus       283 ~ld~al~r--Rf~~~i~i~~-P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t-~G~sgadl~~l~~~a~~~a~r~~~~  358 (444)
T 2zan_A          283 VLDSAIRR--RFEKRIYIPL-PEAHARAAMFRLHLGSTQNSLTEADFQELGRKT-DGYSGADISIIVRDALMQPVRKVQS  358 (444)
T ss_dssp             GSCHHHHT--TCCEEEECCC-CCHHHHHHHHHHHHTTSCEECCHHHHHHHHHHT-TTCCHHHHHHHHHHHHTHHHHHHHH
T ss_pred             ccCHHHHh--hcceEEEeCC-cCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999  9999999997 69999999999999876643 456788999987 8999999999999999999999864


Q ss_pred             cCC------------------------------------CC---CCCCccccHHHHHhchhccCCCcccccccccccccc
Q psy450          429 SAP------------------------------------QV---KSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSL  469 (478)
Q Consensus       429 ~~~------------------------------------~~---~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~  469 (478)
                      ...                                    ..   .....+||++||..|      +++++||++++++..
T Consensus       359 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~df~~a------~~~~~ps~~~~~~~~  432 (444)
T 2zan_A          359 ATHFKKVRGPSRADPNCIVNDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMWDMLRS------LSSTKPTVNEQDLLK  432 (444)
T ss_dssp             CSEEEEECCBCSSCTTSBCSCEEEEECTTSTTEEECCTTTSCTTCBCCCCEEHHHHHHH------HHTCCCSCCHHHHHH
T ss_pred             hhhhhhhccccccccccccccccccCCCCcccchhcccccCchhhccCCccCHHHHHHH------HHhCCCCCCHHHHHH
Confidence            310                                    00   001347999999999      999999999987653

>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=100.00  E-value=7.5e-34  Score=290.30  Aligned_cols=243  Identities=34%  Similarity=0.601  Sum_probs=207.9

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhh-----hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVN-----RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKY  274 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~-----~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~  274 (478)
                      .+..+|++++|++++++.+.+.+....     ...+.. |+++||+||||||||++|++++++++.+|+.++++++...+
T Consensus        10 ~~~~~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~   89 (476)
T 2ce7_A           10 NKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELF   89 (476)
T ss_dssp             SCCCCGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCC
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHH
Confidence            577899999999999999999887642     223434 78999999999999999999999999999999999999999


Q ss_pred             hcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCC-CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCc
Q psy450          275 IGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED-QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDP  353 (478)
Q Consensus       275 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~  353 (478)
                      .|.....++.+|..+....||||||||+|.+.++++... .......+.+++|+..++++....+++||++||+|+.+|+
T Consensus        90 ~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld~  169 (476)
T 2ce7_A           90 VGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDP  169 (476)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSCG
T ss_pred             hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhch
Confidence            999999999999999999999999999999998764321 1122335788999999998777778999999999999999


Q ss_pred             cccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCC
Q psy450          354 AILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQV  433 (478)
Q Consensus       354 ~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~  433 (478)
                      +++|+|||+..+.+++ |+.++|.+|++.++++.++..++++..++..+ .||+|+||.++|++|+..|.++.       
T Consensus       170 allR~gRFd~~i~i~~-Pd~~~R~~Il~~~~~~~~l~~~v~l~~la~~t-~G~sgadL~~lv~~Aal~A~~~~-------  240 (476)
T 2ce7_A          170 ALLRPGRFDKKIVVDP-PDMLGRKKILEIHTRNKPLAEDVNLEIIAKRT-PGFVGADLENLVNEAALLAAREG-------  240 (476)
T ss_dssp             GGGSTTSSCEEEECCC-CCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTC-TTCCHHHHHHHHHHHHHHHHHTT-------
T ss_pred             hhcccCcceeEeecCC-CCHHHHHHHHHHHHHhCCCcchhhHHHHHHhc-CCCcHHHHHHHHHHHHHHHHHcC-------
Confidence            9999999999999997 79999999999999998888888999999887 89999999999999998887642       


Q ss_pred             CCCCccccHHHHHhchhccCCCcccccc
Q psy450          434 KSAPVIVTMDDFLGACSLATAPDKFSQS  461 (478)
Q Consensus       434 ~~~~~~it~~d~~~A~~~~~~l~~~~ps  461 (478)
                         ...|+.+||..|      +.++.++
T Consensus       241 ---~~~I~~~dl~~a------l~~v~~~  259 (476)
T 2ce7_A          241 ---RDKITMKDFEEA------IDRVIAG  259 (476)
T ss_dssp             ---CSSBCHHHHHHH------HHHHC--
T ss_pred             ---CCeecHHHHHHH------HHHHhcC
Confidence               457999999999      7766554

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=100.00  E-value=1.5e-32  Score=261.70  Aligned_cols=242  Identities=33%  Similarity=0.603  Sum_probs=206.9

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhh-----hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~-----~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      ..+..+|++++|++.+++.+.+.+.....     ..+.. +.+++|+||||||||++|+++++.++.+++.+++.++...
T Consensus         5 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~~   84 (257)
T 1lv7_A            5 DQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEM   84 (257)
T ss_dssp             CSSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTS
T ss_pred             cCCCCCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHHH
Confidence            46778999999999999999988766421     11222 7789999999999999999999999999999999999888


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCC-CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCC
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED-QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD  352 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld  352 (478)
                      +.|.....++.+|..+....|+++||||+|.+.+.+.... .......+.++.++..+++.....+++||++||+++.++
T Consensus        85 ~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l~  164 (257)
T 1lv7_A           85 FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLD  164 (257)
T ss_dssp             CCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSC
T ss_pred             hhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCEEEEEeeCCchhCC
Confidence            8899999999999999988899999999999987654321 112233467888999999887778899999999999999


Q ss_pred             ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy450          353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ  432 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~  432 (478)
                      +++++++||+..+++++ |+.++|.+|++.++++.++..+.++..++..+ .||+++||.++|+.|...|.++.      
T Consensus       165 ~~l~r~~rf~~~i~i~~-P~~~~r~~il~~~~~~~~l~~~~~~~~la~~~-~G~~~~dl~~l~~~a~~~a~~~~------  236 (257)
T 1lv7_A          165 PALLRPGRFDRQVVVGL-PDVRGREQILKVHMRRVPLAPDIDAAIIARGT-PGFSGADLANLVNEAALFAARGN------  236 (257)
T ss_dssp             GGGGSTTSSCEEEECCC-CCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTC-TTCCHHHHHHHHHHHHHHHHHTT------
T ss_pred             HHHcCCCcCCeEEEeCC-CCHHHHHHHHHHHHhcCCCCccccHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHhC------
Confidence            99999999999999997 68999999999999988888888888888887 79999999999999998887753      


Q ss_pred             CCCCCccccHHHHHhchhccCCCcccc
Q psy450          433 VKSAPVIVTMDDFLGACSLATAPDKFS  459 (478)
Q Consensus       433 ~~~~~~~it~~d~~~A~~~~~~l~~~~  459 (478)
                          ...||.+||.+|      ++++.
T Consensus       237 ----~~~i~~~~~~~a------~~~~~  253 (257)
T 1lv7_A          237 ----KRVVSMVEFEKA------KDKIM  253 (257)
T ss_dssp             ----CSSBCHHHHHHH------HHHHT
T ss_pred             ----CCcccHHHHHHH------HHHHh
Confidence                457999999999      66554

>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=100.00  E-value=7.5e-33  Score=285.30  Aligned_cols=250  Identities=40%  Similarity=0.650  Sum_probs=216.7

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhh
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKY  274 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~  274 (478)
                      +..+|++++|++.+++.|.+.+..+..      ..+.. +.++||+||||||||++|++++++++.+|+.++|+++.+.+
T Consensus       199 ~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~  278 (489)
T 3hu3_A          199 NEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL  278 (489)
T ss_dssp             TCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSC
T ss_pred             CCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhh
Confidence            456799999999999999999887632      22333 78999999999999999999999999999999999999999


Q ss_pred             hcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCcc
Q psy450          275 IGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPA  354 (478)
Q Consensus       275 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~  354 (478)
                      .|.....++.+|..+....|++|||||+|.+.++++..  ......++++.|+..+++.....+++||+|||+++.++++
T Consensus       279 ~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~--~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~a  356 (489)
T 3hu3_A          279 AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT--HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPA  356 (489)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSC--CCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGG
T ss_pred             cchhHHHHHHHHHHHHhcCCcEEEecchhhhccccccc--cchHHHHHHHHHHHHhhccccCCceEEEEecCCccccCHH
Confidence            99999999999999999999999999999999876432  3445568899999999988778899999999999999999


Q ss_pred             ccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCC
Q psy450          355 ILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVK  434 (478)
Q Consensus       355 l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~  434 (478)
                      ++++|||+..+++++ |+.++|.+||+.+++...+..+.++..++..+ .||+++||..+|++|+..|+++.........
T Consensus       357 l~r~gRf~~~i~i~~-P~~~eR~~IL~~~~~~~~l~~~~~l~~la~~t-~g~s~~dL~~L~~~A~~~a~r~~~~~i~~~~  434 (489)
T 3hu3_A          357 LRRFGRFDREVDIGI-PDATGRLEILQIHTKNMKLADDVDLEQVANET-HGHVGADLAALCSEAALQAIRKKMDLIDLED  434 (489)
T ss_dssp             GGSTTSSCEEEECCC-CCHHHHHHHHHHHTTTSCBCTTCCHHHHHHTC-TTCCHHHHHHHHHHHHHHHHHTTTTTCCTTC
T ss_pred             HhCCCcCceEEEeCC-CCHHHHHHHHHHHHhcCCCcchhhHHHHHHHc-cCCcHHHHHHHHHHHHHHHHHhccccccccc
Confidence            999999999999997 69999999999999999988888999999987 8999999999999999999988654221111


Q ss_pred             -------CCCccccHHHHHhchhccCCCcccccc
Q psy450          435 -------SAPVIVTMDDFLGACSLATAPDKFSQS  461 (478)
Q Consensus       435 -------~~~~~it~~d~~~A~~~~~~l~~~~ps  461 (478)
                             .....||++||..|      +++++||
T Consensus       435 ~~~~~~~~~~~~vt~edf~~A------l~~~~ps  462 (489)
T 3hu3_A          435 ETIDAEVMNSLAVTMDDFRWA------LSQSNPS  462 (489)
T ss_dssp             SSCCHHHHHHCCBCHHHHHHH------HTSHHHH
T ss_pred             cccchhhcccCcCCHHHHHHH------HHhCCch
Confidence                   12346999999999      7766654

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=100.00  E-value=3.1e-32  Score=263.44  Aligned_cols=244  Identities=44%  Similarity=0.703  Sum_probs=212.6

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhh------hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNR------TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~------~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ...|+.+|++++|++.+++.|.+.+..+..      ..+.. +.++||+||||||||++|+++|+.++.+++.+++.++.
T Consensus         9 ~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~   88 (285)
T 3h4m_A            9 DERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELV   88 (285)
T ss_dssp             ESSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGC
T ss_pred             cCCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHH
Confidence            456788999999999999999998877632      22333 78899999999999999999999999999999999999


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC-chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS-SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                      ..+.|.....+..+|..+....|+||||||+|.+.+++.+.... .......+..++..+++.....+++||+|||.++.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~  168 (285)
T 3h4m_A           89 KKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDI  168 (285)
T ss_dssp             CCSTTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGG
T ss_pred             HhccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchh
Confidence            99999999999999999999999999999999998776443222 23345677888888888777778999999999999


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      +++++++++||+..+.++. |+.++|.+|++.+++...+..+.++..++..+ .|++++++..+|+.|...|+.+.    
T Consensus       169 l~~~l~~~~Rf~~~i~~~~-p~~~~r~~il~~~~~~~~~~~~~~~~~l~~~~-~g~~~~~i~~l~~~a~~~a~~~~----  242 (285)
T 3h4m_A          169 LDPAILRPGRFDRIIEVPA-PDEKGRLEILKIHTRKMNLAEDVNLEEIAKMT-EGCVGAELKAICTEAGMNAIREL----  242 (285)
T ss_dssp             BCHHHHSTTSEEEEEECCC-CCHHHHHHHHHHHHTTSCBCTTCCHHHHHHHC-TTCCHHHHHHHHHHHHHHHHHTT----
T ss_pred             cCHHHcCCCcCCeEEEECC-CCHHHHHHHHHHHHhcCCCCCcCCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHhc----
Confidence            9999999999999999987 79999999999999988888888999999987 89999999999999999998764    


Q ss_pred             CCCCCCCccccHHHHHhchhccCCCccccc
Q psy450          431 PQVKSAPVIVTMDDFLGACSLATAPDKFSQ  460 (478)
Q Consensus       431 ~~~~~~~~~it~~d~~~A~~~~~~l~~~~p  460 (478)
                            ...||.+||.+|      ++++.+
T Consensus       243 ------~~~I~~~d~~~a------l~~~~~  260 (285)
T 3h4m_A          243 ------RDYVTMDDFRKA------VEKIME  260 (285)
T ss_dssp             ------CSSBCHHHHHHH------HHHHHH
T ss_pred             ------cCcCCHHHHHHH------HHHHHh
Confidence                  457999999999      666554

>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=100.00  E-value=1.5e-32  Score=262.23  Aligned_cols=247  Identities=34%  Similarity=0.566  Sum_probs=192.0

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhh-----hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhh
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYI  275 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~-----~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~  275 (478)
                      |+.+|++++|++.+++.+.+.+.....     ..|.. +.++||+||||||||++|++++++++.+++.++++++...+.
T Consensus         1 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~   80 (262)
T 2qz4_A            1 MGVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIG   80 (262)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSST
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhcc
Confidence            567899999999999999988776422     12223 788999999999999999999999999999999999988888


Q ss_pred             cchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC--chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCc
Q psy450          276 GQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS--SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDP  353 (478)
Q Consensus       276 g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~--~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~  353 (478)
                      +.+...++.+|..+....|+||||||+|.+..++......  .......++.++..+++.....+++||+|||.++.+|+
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            8888999999999998899999999999998765332111  12234677888888888777778999999999999999


Q ss_pred             cccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC--HHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCC
Q psy450          354 AILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS--LDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAP  431 (478)
Q Consensus       354 ~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~--~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~  431 (478)
                      +++++|||+..+++++ |+.++|.+|++.+++..++..+.+  ...++..+ .||+|+||..+|+.|+..|.++.     
T Consensus       161 ~l~~~~R~~~~i~i~~-p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~-~g~~~~~l~~l~~~a~~~a~~~~-----  233 (262)
T 2qz4_A          161 ALMRPGRLDRHVFIDL-PTLQERREIFEQHLKSLKLTQSSTFYSQRLAELT-PGFSGADIANICNEAALHAAREG-----  233 (262)
T ss_dssp             GGGSTTSCCEEEECCS-CCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTC-TTCCHHHHHHHHHHHHTC----------
T ss_pred             HHhcCCcCCeEEEeCC-cCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHcC-----
Confidence            9999999999999997 699999999999998887665443  35677766 89999999999999998887664     


Q ss_pred             CCCCCCccccHHHHHhchhccCCCccccccccccc
Q psy450          432 QVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDN  466 (478)
Q Consensus       432 ~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~  466 (478)
                           ...|+.+||..|      ++++.++....+
T Consensus       234 -----~~~i~~~d~~~a------~~~~~~~~~~~~  257 (262)
T 2qz4_A          234 -----HTSVHTLNFEYA------VERVLAGTAKKS  257 (262)
T ss_dssp             --------CCBCCHHHH------HHHHHHHHHCC-
T ss_pred             -----CCCCCHHHHHHH------HHHhccChhhhh
Confidence                 347999999999      888877765443

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=100.00  E-value=5.2e-32  Score=278.28  Aligned_cols=243  Identities=33%  Similarity=0.584  Sum_probs=209.0

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhh-----hCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhh
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNR-----TSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYI  275 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~-----~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~  275 (478)
                      +..+|++++|+++++..+.+++.....     ..+.. +++++|+||||||||++|++++..++.+++.++++++...+.
T Consensus        26 ~~~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~~  105 (499)
T 2dhr_A           26 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV  105 (499)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSCT
T ss_pred             CCCCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhhh
Confidence            788999999999999999998776422     22333 778999999999999999999999999999999999988888


Q ss_pred             cchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCC-CCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCcc
Q psy450          276 GQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE-DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPA  354 (478)
Q Consensus       276 g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~-~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~  354 (478)
                      +.....++.+|+.+....|+++||||+|.+...++.. ........+.+++++..|++...+..++++++||+|+.+|++
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            8888899999999888889999999999998765431 112233457789999999988777889999999999999999


Q ss_pred             ccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCC
Q psy450          355 ILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVK  434 (478)
Q Consensus       355 l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~  434 (478)
                      ++|+|||+..+++++ |+.++|.+|++.++++..+..++++..++..+ .||+|+||.++|++|+..|.++.        
T Consensus       186 Llr~gRfdr~i~i~~-Pd~~~R~~IL~~~~~~~~l~~dv~l~~lA~~t-~G~~gadL~~lv~~Aa~~A~~~~--------  255 (499)
T 2dhr_A          186 LLRPGRFDRQIAIDA-PDVKGREQILRIHARGKPLAEDVDLALLAKRT-PGFVGADLENLLNEAALLAAREG--------  255 (499)
T ss_dssp             TSSTTSSCCEEECCC-CCHHHHHHHHHHTTSSSCCCCSSTTHHHHTTS-CSCCHHHHHHHHHHHHHHHTTTC--------
T ss_pred             cccccccceEEecCC-CCHHHHHHHHHHHHhcCCCChHHHHHHHHHhc-CCCCHHHHHHHHHHHHHHHHHhC--------
Confidence            999999999999998 69999999999999888888889999999987 79999999999999998776542        


Q ss_pred             CCCccccHHHHHhchhccCCCccccccc
Q psy450          435 SAPVIVTMDDFLGACSLATAPDKFSQSV  462 (478)
Q Consensus       435 ~~~~~it~~d~~~A~~~~~~l~~~~ps~  462 (478)
                        ...||.+||.+|      +.++.++.
T Consensus       256 --~~~It~~dl~~a------l~~v~~~~  275 (499)
T 2dhr_A          256 --RRKITMKDLEEA------ADRVMMLP  275 (499)
T ss_dssp             --CSSCCSHHHHHH------HHHHTTCS
T ss_pred             --CCccCHHHHHHH------HHHHhccc
Confidence              347999999999      76665543

>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=99.98  E-value=1.2e-31  Score=267.47  Aligned_cols=258  Identities=31%  Similarity=0.521  Sum_probs=210.3

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhhC------CCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTS------GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~------~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      ..+..+|++++|++.+++.|.+.+.++...+      +..+.++||+||||||||++|+++|+.++.+++.++++++...
T Consensus        77 ~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~  156 (357)
T 3d8b_A           77 HGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSK  156 (357)
T ss_dssp             CSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCS
T ss_pred             CCCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhcc
Confidence            3578899999999999999999998864332      2337899999999999999999999999999999999999999


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC--CCCeEEEEEcCCCCCC
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT--SQDVFILGATNRVDLL  351 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~v~vI~ttn~~~~l  351 (478)
                      +.|..+..++.+|..+....|+||||||+|.+.+.+...  ......++++.++..+++...  ..+++||++||.++.+
T Consensus       157 ~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~--~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l  234 (357)
T 3d8b_A          157 WVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDG--EHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEI  234 (357)
T ss_dssp             STTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC--------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGB
T ss_pred             ccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCC--cchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhC
Confidence            999999999999999999999999999999998766432  223446788899999987653  4579999999999999


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      ++++++  ||+..+++++ |+.++|..|++.+++..... .+..+..++..+ .||+|+||..+|+.|+..++++..+..
T Consensus       235 ~~~l~~--Rf~~~i~i~~-p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~t-~G~s~~dl~~l~~~a~~~~ir~l~~~~  310 (357)
T 3d8b_A          235 DEAARR--RLVKRLYIPL-PEASARKQIVINLMSKEQCCLSEEEIEQIVQQS-DAFSGADMTQLCREASLGPIRSLQTAD  310 (357)
T ss_dssp             CHHHHT--TCCEEEECCC-CCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHHT-TTCCHHHHHHHHHHHHTHHHHHCCC--
T ss_pred             CHHHHh--hCceEEEeCC-cCHHHHHHHHHHHHhhcCCCccHHHHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHHhhhhh
Confidence            999999  9999999998 68999999999998765533 234578888887 899999999999999999998653211


Q ss_pred             CC--CCCCCccccHHHHHhchhccCCCcccccccccccccc
Q psy450          431 PQ--VKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSL  469 (478)
Q Consensus       431 ~~--~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~  469 (478)
                      ..  .......|+.+||..|      +++++||++.+++..
T Consensus       311 ~~~~~~~~~~~i~~~d~~~a------l~~~~ps~~~~~~~~  345 (357)
T 3d8b_A          311 IATITPDQVRPIAYIDFENA------FRTVRPSVSPKDLEL  345 (357)
T ss_dssp             --------CCCBCHHHHHHH------HHHHGGGCCCCCHHH
T ss_pred             hccccccccCCcCHHHHHHH------HHhcCCCCCHHHHHH
Confidence            11  1234567999999999      999999998876643

>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=99.98  E-value=1.1e-30  Score=248.34  Aligned_cols=238  Identities=33%  Similarity=0.595  Sum_probs=200.7

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhh-----hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVN-----RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~-----~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      ...|..+|++++|+++++..+........     ...+.. ++|++|+||||||||+++++++..++.+++.+++.++..
T Consensus         8 ~~~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~   87 (254)
T 1ixz_A            8 TEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVE   87 (254)
T ss_dssp             CCCCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHH
T ss_pred             cCCCCCCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHH
Confidence            45688999999999999999988776542     222333 678999999999999999999999999999999999888


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCC-CCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCC
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE-DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLL  351 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~-~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~l  351 (478)
                      .+.+.....+..+|+.+....|+++++||+|.+...+... ........+.+++++..+++...+..++++++||+|+.+
T Consensus        88 ~~~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~l  167 (254)
T 1ixz_A           88 MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDIL  167 (254)
T ss_dssp             SCTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGS
T ss_pred             HHhhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchhC
Confidence            7788888889999999887889999999999998665321 112233456788899999988777789999999999999


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCC
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAP  431 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~  431 (478)
                      |++++|++||+..++++. |+.++|.+|++.+.++..+..++++..++..+ .||+|+||.++|+.|+..|.++.     
T Consensus       168 d~~l~r~~rf~~~i~i~~-p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~-~G~~~~dl~~~~~~a~~~a~~~~-----  240 (254)
T 1ixz_A          168 DPALLRPGRFDRQIAIDA-PDVKGREQILRIHARGKPLAEDVDLALLAKRT-PGFVGADLENLLNEAALLAAREG-----  240 (254)
T ss_dssp             CGGGGSTTSSCEEEECCS-CCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTC-TTCCHHHHHHHHHHHHHHHHHTT-----
T ss_pred             CHHHcCCCcCCeEEeeCC-cCHHHHHHHHHHHHcCCCCCcccCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHhc-----
Confidence            999999999999999997 69999999999999888888888999999987 89999999999999998887652     


Q ss_pred             CCCCCCccccHHHHHhc
Q psy450          432 QVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       432 ~~~~~~~~it~~d~~~A  448 (478)
                           ...||.+||.+|
T Consensus       241 -----~~~I~~~dl~~a  252 (254)
T 1ixz_A          241 -----RRKITMKDLEEA  252 (254)
T ss_dssp             -----CSSBCHHHHHHH
T ss_pred             -----CCCcCHHHHHHH
Confidence                 347999999998

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.98  E-value=1.3e-31  Score=260.64  Aligned_cols=258  Identities=33%  Similarity=0.519  Sum_probs=208.6

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhh------CCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRT------SGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~------~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      ...|+.+|++++|++.+++.+.+.+..+...      .+.++.++||+||||||||++|+++++.++.+++.++++++..
T Consensus        13 ~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~   92 (297)
T 3b9p_A           13 EGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTS   92 (297)
T ss_dssp             CCSSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSS
T ss_pred             cCCCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhh
Confidence            3467889999999999999999998876432      1233789999999999999999999999999999999999999


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCC---CCeEEEEEcCCCC
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTS---QDVFILGATNRVD  349 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~---~~v~vI~ttn~~~  349 (478)
                      .+.|.....++.+|..+....|++|||||+|.+...+....  .....+..+.++..+++....   .+++||++||+|+
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~--~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~  170 (297)
T 3b9p_A           93 KYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSE--HEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQ  170 (297)
T ss_dssp             SSCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-------CCSHHHHHHHHHHHHHCC------CEEEEEEESCGG
T ss_pred             cccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCc--chHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChh
Confidence            89999999999999999999999999999999987664322  222356777888888876543   5799999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHh
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIIT  428 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~  428 (478)
                      .+++++++  ||+..+++++ |+.++|..|++.++++.+.. .+..+..++..+ .||+|+|+..+|+.|+..++++...
T Consensus       171 ~l~~~l~~--R~~~~i~~~~-p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~~-~g~~~~~l~~l~~~a~~~a~r~~~~  246 (297)
T 3b9p_A          171 ELDEAALR--RFTKRVYVSL-PDEQTRELLLNRLLQKQGSPLDTEALRRLAKIT-DGYSGSDLTALAKDAALEPIRELNV  246 (297)
T ss_dssp             GBCHHHHH--HCCEEEECCC-CCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHHT-TTCCHHHHHHHHHHHTTHHHHTCC-
T ss_pred             hCCHHHHh--hCCeEEEeCC-cCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999  9999999997 68999999999998876543 234477788876 8999999999999999999987532


Q ss_pred             cCCC--CCCCCccccHHHHHhchhccCCCccccccccccccc
Q psy450          429 SAPQ--VKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYS  468 (478)
Q Consensus       429 ~~~~--~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~  468 (478)
                      ....  .......||.+||..|      +.+++||++++++.
T Consensus       247 ~~~~~~~~~~~~~i~~~d~~~a------~~~~~~s~~~~~~~  282 (297)
T 3b9p_A          247 EQVKCLDISAMRAITEQDFHSS------LKRIRRSVAPQSLN  282 (297)
T ss_dssp             -------CCCCCCCCHHHHHHH------TTSCCCSSCHHHHH
T ss_pred             hhcccccccccCCcCHHHHHHH------HHHcCCCCCHHHHH
Confidence            2111  1223457999999999      99999998876543

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.97  E-value=2.3e-30  Score=261.43  Aligned_cols=257  Identities=31%  Similarity=0.494  Sum_probs=202.2

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhC------CCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTS------GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~------~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      ...+..+|++++|++.+++.|.+.+..+....      +.++.++||+||||||||++|+++|++++.+|+.+++.++.+
T Consensus       107 ~~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~  186 (389)
T 3vfd_A          107 DNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTS  186 (389)
T ss_dssp             CCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC--
T ss_pred             ccCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhhc
Confidence            45678899999999999999999998775422      233679999999999999999999999999999999999999


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC--CCCeEEEEEcCCCCC
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT--SQDVFILGATNRVDL  350 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~v~vI~ttn~~~~  350 (478)
                      .+.|..+..++.+|..+....|+||||||+|.+...+...  ......++...|+..+++...  ..+++||+|||+++.
T Consensus       187 ~~~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~--~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~  264 (389)
T 3vfd_A          187 KYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREG--EHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQE  264 (389)
T ss_dssp             -----CHHHHHHHHHHHHHSSSEEEEEETGGGGC----------CTHHHHHHHHHHHHHHHC-----CEEEEEEESCGGG
T ss_pred             cccchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCc--cchHHHHHHHHHHHHhhcccccCCCCEEEEEecCCchh
Confidence            9999999999999999999999999999999998765432  223346788888888887654  457999999999999


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      +++++++  ||+..+++++ |+.++|..|++.++...... .+..+..++..+ .||++++|..+|+.|+..++++..+.
T Consensus       265 l~~~l~~--R~~~~i~i~~-p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~-~g~~~~~l~~L~~~a~~~~~rel~~~  340 (389)
T 3vfd_A          265 LDEAVLR--RFIKRVYVSL-PNEETRLLLLKNLLCKQGSPLTQKELAQLARMT-DGYSGSDLTALAKDAALGPIRELKPE  340 (389)
T ss_dssp             CCHHHHT--TCCEEEECCC-CCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHT-TTCCHHHHHHHHHHHTTHHHHTSCCC
T ss_pred             cCHHHHc--CcceEEEcCC-cCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHhhhhh
Confidence            9999999  9999999997 69999999999998775543 233577888877 89999999999999999999885432


Q ss_pred             CCC--CCCCCccccHHHHHhchhccCCCcccccccccccc
Q psy450          430 APQ--VKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNY  467 (478)
Q Consensus       430 ~~~--~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~  467 (478)
                      ...  .......|+.+||..|      +++++|+++.+++
T Consensus       341 ~~~~~~~~~~~~i~~~d~~~a------l~~~~~s~~~~~l  374 (389)
T 3vfd_A          341 QVKNMSASEMRNIRLSDFTES------LKKIKRSVSPQTL  374 (389)
T ss_dssp             ---CCSSSCCCCCCHHHHHHH------HHHCCCSSCHHHH
T ss_pred             hhhccchhhcCCcCHHHHHHH------HHHcCCCCCHHHH
Confidence            211  2234567999999999      9999999876544

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.97  E-value=3.3e-29  Score=241.35  Aligned_cols=237  Identities=33%  Similarity=0.598  Sum_probs=199.5

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhh-----hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVN-----RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~-----~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      ..|..+|++++|++++++.+........     ...+.. +.+++|+||||||||+++++++..++.+++.+++.++...
T Consensus        33 ~~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~  112 (278)
T 1iy2_A           33 EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM  112 (278)
T ss_dssp             CCCCCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHS
T ss_pred             CCCCCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHH
Confidence            3488999999999999999998776542     222333 6779999999999999999999999999999999988887


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCC-CCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCC
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE-DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD  352 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~-~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld  352 (478)
                      +.+.....+..+|+.+....|+++++||+|.+...+... ........+.+++++..+++...+..++++++||+|+.+|
T Consensus       113 ~~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t~~p~~ld  192 (278)
T 1iy2_A          113 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILD  192 (278)
T ss_dssp             TTTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEEESCTTSSC
T ss_pred             HhhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEecCCchhCC
Confidence            778788888999999988889999999999987654321 1112234567788899999877777899999999999999


Q ss_pred             ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy450          353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ  432 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~  432 (478)
                      ++++|++||+..++++. |+.++|.+|++.++++..+..++++..++..+ .||+|+||.++|+.|+..|.++.      
T Consensus       193 ~~l~r~~rf~~~i~i~~-p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~-~G~~~~dl~~l~~~a~~~a~~~~------  264 (278)
T 1iy2_A          193 PALLRPGRFDRQIAIDA-PDVKGREQILRIHARGKPLAEDVDLALLAKRT-PGFVGADLENLLNEAALLAAREG------  264 (278)
T ss_dssp             HHHHSTTSSCCEEECCC-CCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTC-TTCCHHHHHHHHHHHHHHHHHTT------
T ss_pred             HhHcCCCcCCeEEEeCC-cCHHHHHHHHHHHHccCCCCcccCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHhC------
Confidence            99999999999999997 69999999999999888888888899999887 89999999999999998877642      


Q ss_pred             CCCCCccccHHHHHhc
Q psy450          433 VKSAPVIVTMDDFLGA  448 (478)
Q Consensus       433 ~~~~~~~it~~d~~~A  448 (478)
                          ...||.+||.+|
T Consensus       265 ----~~~I~~~dl~~a  276 (278)
T 1iy2_A          265 ----RRKITMKDLEEA  276 (278)
T ss_dssp             ----CCSBCHHHHHHH
T ss_pred             ----CCCcCHHHHHHH
Confidence                347999999998

>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=99.97  E-value=5.3e-32  Score=259.50  Aligned_cols=248  Identities=33%  Similarity=0.559  Sum_probs=200.1

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhh-----hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVN-----RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~-----~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      +..|..+|++++|++.+++.+.+.+....     ...+.. +.++||+||||||||++|++++++++.+++.++++++..
T Consensus         3 ~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~   82 (268)
T 2r62_A            3 AEKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIE   82 (268)
T ss_dssp             CCCCCCCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTT
T ss_pred             ccCCCCCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHH
Confidence            35678899999999999999998877532     112333 778999999999999999999999999999999999988


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCC--CchhHHHHHHHHHHhhcCCCC-CCCeEEEEEcCCCC
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ--SSGVMDRVVSQLLAEMDGVHT-SQDVFILGATNRVD  349 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~--~~~~~~~~~~~ll~~l~~~~~-~~~v~vI~ttn~~~  349 (478)
                      .+.|.....++.+|..+....|+||||||+|.+.+.+..++.  ......+.++.++..+++... ..+++||+|||.++
T Consensus        83 ~~~~~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~ttn~~~  162 (268)
T 2r62_A           83 MFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPE  162 (268)
T ss_dssp             SCSSSCSSSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSCSCCEEEECBSCCT
T ss_pred             hhcchHHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCCCCEEEEEecCCch
Confidence            888887777888999998889999999999999876532110  011112345677777776544 34589999999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      .++++++++|||+..++++. |+.++|.++++.++++..+..+.++..++..+ .||+|+||.++|+.|...|..+    
T Consensus       163 ~ld~~l~r~~Rf~~~i~i~~-p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~-~g~~g~dl~~l~~~a~~~a~~~----  236 (268)
T 2r62_A          163 ILDPALMRPGRFDRQVLVDK-PDFNGRVEILKVHIKGVKLANDVNLQEVAKLT-AGLAGADLANIINEAALLAGRN----  236 (268)
T ss_dssp             TSCGGGGSSSSSCCCCBCCC-CCTTTHHHHHHHHTSSSCCCSSCCTTTTTSSS-CSSCHHHHHHHHHHHHHTTSSS----
T ss_pred             hcCHhHcCCCCCCeEEEecC-cCHHHHHHHHHHHHhcCCCCCccCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHh----
Confidence            99999999999999999997 68899999999999888887788888888876 8999999999999998776543    


Q ss_pred             CCCCCCCCccccHHHHHhchhccCCCccccccccc
Q psy450          430 APQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAP  464 (478)
Q Consensus       430 ~~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~  464 (478)
                            ....|+.+||.+|      ++++.|+...
T Consensus       237 ------~~~~i~~~~~~~a------~~~~~~~~~~  259 (268)
T 2r62_A          237 ------NQKEVRQQHLKEA------VERGIAGLEK  259 (268)
T ss_dssp             ------CCCSCCHHHHHTS------CTTCCCCCC-
T ss_pred             ------ccCCcCHHHHHHH------HHHHhhcchh
Confidence                  2457999999999      9988887653

>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=99.95  E-value=6e-27  Score=256.15  Aligned_cols=365  Identities=13%  Similarity=0.157  Sum_probs=250.8

Q ss_pred             cchhhhhHHHHhhhhcCCCeEEEecccccccchh--------hHhhhccccccccccccchhhhccCCCcEEEEe-----
Q psy450           28 RYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKY--------VYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-----   94 (478)
Q Consensus        28 ~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r~--------~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-----   94 (478)
                      .+..++.+|+ .++...++||||||+|.+++.+.        .+.+...                ...+.+.+|+     
T Consensus       263 ~e~~l~~~~~-~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~----------------l~~~~~~~I~at~~~  325 (758)
T 1r6b_X          263 FEKRFKALLK-QLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPL----------------LSSGKIRVIGSTTYQ  325 (758)
T ss_dssp             HHHHHHHHHH-HHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSC----------------SSSCCCEEEEEECHH
T ss_pred             HHHHHHHHHH-HHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHH----------------HhCCCeEEEEEeCch
Confidence            3447888998 88888899999999999975431        1111111                2234566666     


Q ss_pred             -------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcC--CCCCCChhHHHHHHHhcCC-----CCHHHHHHHHHH
Q psy450           95 -------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLG--GDYGFDASLVEYLSSVTSG-----FERHDLTCLVRL  160 (478)
Q Consensus        95 -------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~--~~~~~~~~~i~~la~~t~G-----~s~~di~~l~~~  160 (478)
                             +|+++.|||+ .+.|+.|+.++|.+||+.+...+.  .....+.+.++.++..+.|     +.+..+..++++
T Consensus       326 ~~~~~~~~d~aL~~Rf~-~i~v~~p~~~e~~~il~~l~~~~~~~~~v~~~~~al~~~~~~s~~~i~~~~lp~~~i~lld~  404 (758)
T 1r6b_X          326 EFSNIFEKDRALARRFQ-KIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDE  404 (758)
T ss_dssp             HHHCCCCCTTSSGGGEE-EEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHHHH
T ss_pred             HHhhhhhcCHHHHhCce-EEEcCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhcccccCchHHHHHHHH
Confidence                   6899999997 799999999999999998876521  1233444445777766554     556678888888


Q ss_pred             HHHHHHHhh-cCCCCCCCHHHHHHHHHHhhhhcccCCCCCC------CCCCCcccccCcHHHHHHHHHHHHhhhhhC---
Q psy450          161 SVKNKMLKQ-GINKRDLQKEDFQQIYDDLQSRYSDQLDAPS------VPNVSWEDIGGLSKLKAEILSTFRGVNRTS---  230 (478)
Q Consensus       161 a~~~a~~~~-~~~~~~it~~d~~~a~~~~~~~~~~~~~~~~------~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~---  230 (478)
                      |+....... ......++.+|+..++..+.+..........      ....-.++++|++.+++.+...+.......   
T Consensus       405 a~~~~~~~~~~~~~~~v~~~di~~~~~~~~~ip~~~~~~~~~~~l~~l~~~l~~~v~g~~~~~~~l~~~i~~~~~g~~~~  484 (758)
T 1r6b_X          405 AGARARLMPVSKRKKTVNVADIESVVARIARIPEKSVSQSDRDTLKNLGDRLKMLVFGQDKAIEALTEAIKMARAGLGHE  484 (758)
T ss_dssp             HHHHHHHSSSCCCCCSCCHHHHHHHHHHHSCCCCCCSSSSHHHHHHHHHHHHTTTSCSCHHHHHHHHHHHHHHHTTCSCT
T ss_pred             HHHHHhcccccccCCccCHHHHHHHHHHhcCCCccccchhHHHHHHHHHHHHHhhccCHHHHHHHHHHHHHHHhcccCCC
Confidence            876654321 1235679999999999887532211110000      000012358899999999888776654321   


Q ss_pred             CCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh------------hhcchHHHHHHHHHHhHhCCCeEEE
Q psy450          231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK------------YIGQSEENIRNVFLKARSAAPCVVF  298 (478)
Q Consensus       231 ~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~------------~~g~~~~~~~~~~~~a~~~~p~il~  298 (478)
                      +.+..++||+||||||||++|+++++.++.+++.++++++...            |.|..+.  ..+....+...++|||
T Consensus       485 ~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~~~l~g~~~g~~g~~~~--~~l~~~~~~~~~~vl~  562 (758)
T 1r6b_X          485 HKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQG--GLLTDAVIKHPHAVLL  562 (758)
T ss_dssp             TSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCCSCSHHHHHT--THHHHHHHHCSSEEEE
T ss_pred             CCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhHhhhcCCCCCCcCcccc--chHHHHHHhCCCcEEE
Confidence            2224579999999999999999999999999999999887543            3332221  1223344456678999


Q ss_pred             EcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC---------CCCeEEEEEcCCCC--------------------
Q psy450          299 FDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT---------SQDVFILGATNRVD--------------------  349 (478)
Q Consensus       299 iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~---------~~~v~vI~ttn~~~--------------------  349 (478)
                      |||+|.+.             ..+++.|+..++...-         ..+++||+|||.+.                    
T Consensus       563 lDEi~~~~-------------~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~tsN~~~~~~~~~~~g~~~~~~~~~~~  629 (758)
T 1r6b_X          563 LDEIEKAH-------------PDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAM  629 (758)
T ss_dssp             EETGGGSC-------------HHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC-----------------CH
T ss_pred             EeCccccC-------------HHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEecCcchhhhhhcccCccccchHHHHH
Confidence            99999886             3567777777763211         24688999999854                    


Q ss_pred             -----CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcC-----------CCCCCCCHHHHHHh-cCCCCCHHHHH
Q psy450          350 -----LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKF-----------KLSDDVSLDSLVHH-FPSQMSGADIY  412 (478)
Q Consensus       350 -----~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~-----------~~~~~~~~~~la~~-~~~~~sg~di~  412 (478)
                           .+++++++  ||+..+.++. ++.+++..|++.++...           .++++ -+..++.+ ++.++..+++.
T Consensus       630 ~~~~~~~~~~l~~--R~~~~i~~~~-l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~-a~~~l~~~~~~~~~g~R~l~  705 (758)
T 1r6b_X          630 EEIKKIFTPEFRN--RLDNIIWFDH-LSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQE-ARNWLAEKGYDRAMGARPMA  705 (758)
T ss_dssp             HHHHHHSCHHHHT--TCSEEEECCC-CCHHHHHHHHHHHHHHHHHHHHHTTEEEEECHH-HHHHHHHHHCBTTTBTTTHH
T ss_pred             HHHHHhcCHHHHh--hCCcceeeCC-CCHHHHHHHHHHHHHHHHHHHHHCCcEEEeCHH-HHHHHHHhCCCcCCCchHHH
Confidence                 56788888  9999999985 78999999998877532           22222 25556653 33456678999


Q ss_pred             HHHHHHHHHHHHHHHhc
Q psy450          413 SICSNAWTRAIRRIITS  429 (478)
Q Consensus       413 ~l~~~a~~~a~~r~~~~  429 (478)
                      ++++.+...++.+.+-.
T Consensus       706 ~~i~~~~~~~l~~~~l~  722 (758)
T 1r6b_X          706 RVIQDNLKKPLANELLF  722 (758)
T ss_dssp             HHHHHHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHc
Confidence            99999998877776543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.95  E-value=3.1e-26  Score=250.17  Aligned_cols=360  Identities=12%  Similarity=0.150  Sum_probs=234.6

Q ss_pred             cchhhhhHHHHhhhhcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------------e
Q psy450           28 RYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------------I   95 (478)
Q Consensus        28 ~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------------l   95 (478)
                      .+..++.+|+ .++...|+|||||     +.....+.++..|+                .+.+.+||            +
T Consensus       252 ~e~~l~~~~~-~~~~~~~~iLfiD-----~~~~~~~~L~~~l~----------------~~~v~~I~at~~~~~~~~~~~  309 (758)
T 3pxi_A          252 FEDRLKKVMD-EIRQAGNIILFID-----AAIDASNILKPSLA----------------RGELQCIGATTLDEYRKYIEK  309 (758)
T ss_dssp             -CTTHHHHHH-HHHTCCCCEEEEC-----C--------CCCTT----------------SSSCEEEEECCTTTTHHHHTT
T ss_pred             HHHHHHHHHH-HHHhcCCEEEEEc-----CchhHHHHHHHHHh----------------cCCEEEEeCCChHHHHHHhhc
Confidence            3448999999 9998999999999     22333333443333                34577777            7


Q ss_pred             CHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCC--CCCCChhHHHHHHHh-----cCCCCHHHHHHHHHHHHHHHHHh
Q psy450           96 RKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGG--DYGFDASLVEYLSSV-----TSGFERHDLTCLVRLSVKNKMLK  168 (478)
Q Consensus        96 d~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~--~~~~~~~~i~~la~~-----t~G~s~~di~~l~~~a~~~a~~~  168 (478)
                      ||+++||| ..|.|+.|+.+++.+||+.+...+..  ....+.+.+..++..     ++++.+.....++++|+..+..+
T Consensus       310 d~al~rRf-~~i~v~~p~~~~~~~il~~~~~~~~~~~~~~i~~~al~~~~~~s~~~i~~~~~p~~ai~ll~~a~~~~~~~  388 (758)
T 3pxi_A          310 DAALERRF-QPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGSKVRLR  388 (758)
T ss_dssp             CSHHHHSE-EEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHhhC-cEEEeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccCcCCcHHHHHHHHHHHHHHhh
Confidence            99999999 56999999999999999988766421  223344444666554     34667777777787776654322


Q ss_pred             hc----------------------------------------------------------CCCCCCCHHHHHHHHHHhhh
Q psy450          169 QG----------------------------------------------------------INKRDLQKEDFQQIYDDLQS  190 (478)
Q Consensus       169 ~~----------------------------------------------------------~~~~~it~~d~~~a~~~~~~  190 (478)
                      ..                                                          ....+++.+++...+.....
T Consensus       389 ~~~~p~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~~~~i~~~v~~~~~  468 (758)
T 3pxi_A          389 SFTTPPNLKELEQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLREQVEDTKKSWKEKQGQENSEVTVDDIAMVVSSWTG  468 (758)
T ss_dssp             TTC--CCTHHHHHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHSGGGHHHHCC---CCTHHHHHHHHTTC-
T ss_pred             ccCCCcchhhHHHHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCcccCHHHHHHHHHHHhC
Confidence            10                                                          12334555555555544432


Q ss_pred             hcccCCC------CCCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCC--C-ceEEEeCCCCChHHHHHHHHHHHh---
Q psy450          191 RYSDQLD------APSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLK--R-SGLLLYGPPGTGKTLIAKAVATEC---  258 (478)
Q Consensus       191 ~~~~~~~------~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~--~-~~iLl~Gp~GtGKT~la~~la~~~---  258 (478)
                      .......      .......-.++++|++.+++.+...+.........+  | .++||+||||||||++|+++++.+   
T Consensus       469 ip~~~~~~~~~~~l~~l~~~l~~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~  548 (758)
T 3pxi_A          469 VPVSKIAQTETDKLLNMENILHSRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGD  548 (758)
T ss_dssp             ------CHHHHSCC-CHHHHHHTTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSC
T ss_pred             CChHHhhHHHHHHHHHHHHHHhCcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            1111000      000011113568999999999998887764332221  3 379999999999999999999998   


Q ss_pred             CCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC----
Q psy450          259 RMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH----  334 (478)
Q Consensus       259 ~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~----  334 (478)
                      +.+++.++++++...+... .   ..+....+...++||||||+|.+.             ..+.+.|+..++...    
T Consensus       549 ~~~~i~i~~s~~~~~~~~~-~---~~l~~~~~~~~~~vl~lDEi~~~~-------------~~~~~~Ll~~le~g~~~~~  611 (758)
T 3pxi_A          549 EESMIRIDMSEYMEKHSTS-G---GQLTEKVRRKPYSVVLLDAIEKAH-------------PDVFNILLQVLEDGRLTDS  611 (758)
T ss_dssp             TTCEEEEEGGGGCSSCCCC-------CHHHHHHCSSSEEEEECGGGSC-------------HHHHHHHHHHHHHSBCC--
T ss_pred             CcceEEEechhcccccccc-c---chhhHHHHhCCCeEEEEeCccccC-------------HHHHHHHHHHhccCeEEcC
Confidence            6789999999987665443 1   122333445567899999999886             356677777776422    


Q ss_pred             -----CCCCeEEEEEcCCCCC------------CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcC-------CCC
Q psy450          335 -----TSQDVFILGATNRVDL------------LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKF-------KLS  390 (478)
Q Consensus       335 -----~~~~v~vI~ttn~~~~------------ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~-------~~~  390 (478)
                           ...++++|+|||.+..            +.|.+++  ||+..+.++. ++.+++..|++.++..+       +..
T Consensus       612 ~g~~~~~~~~~iI~ttn~~~~~~~~~~~~~~~~f~p~l~~--Rl~~~i~~~~-l~~~~~~~i~~~~l~~~~~~~~~~~~~  688 (758)
T 3pxi_A          612 KGRTVDFRNTILIMTSNVGASEKDKVMGELKRAFRPEFIN--RIDEIIVFHS-LEKKHLTEIVSLMSDQLTKRLKEQDLS  688 (758)
T ss_dssp             ---CCBCTTCEEEEEESSSTTCCHHHHHHHHHHSCHHHHT--TSSEEEECC---CHHHHHHHHHHHHHHHHHHHHTTTCE
T ss_pred             CCCEeccCCeEEEEeCCCChhhHHHHHHHHHhhCCHHHHh--hCCeEEecCC-CCHHHHHHHHHHHHHHHHHHHHhCCCe
Confidence                 2346899999997654            7888888  9999999985 78999999998776542       111


Q ss_pred             CC---CCHHHHHHh-cCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          391 DD---VSLDSLVHH-FPSQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       391 ~~---~~~~~la~~-~~~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                      ..   .-+..++.+ +.-.++.++++++++.+...++.+.+-.+
T Consensus       689 ~~~~~~a~~~l~~~~~~~~~~~R~L~~~i~~~v~~~l~~~~l~~  732 (758)
T 3pxi_A          689 IELTDAAKAKVAEEGVDLEYGARPLRRAIQKHVEDRLSEELLRG  732 (758)
T ss_dssp             EEECHHHHHHHHGGGCCTTTTTTTHHHHHHHHTHHHHHHHHHTT
T ss_pred             EEECHHHHHHHHHhCCCCCCCChHHHHHHHHHHHHHHHHHHHcC
Confidence            11   125556554 33346778999999999988888776443

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.95  E-value=1.6e-27  Score=236.02  Aligned_cols=155  Identities=11%  Similarity=0.199  Sum_probs=137.6

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhcc
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCK   85 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~   85 (478)
                      ++++|.|++.. ++|.+|. .|++.+||||||||+|+++++|             .++++|++||++            .
T Consensus       218 l~sk~vGese~-~vr~lF~-~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~------------~  283 (405)
T 4b4t_J          218 LVQKYIGEGSR-MVRELFV-MAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGF------------E  283 (405)
T ss_dssp             GSCSSTTHHHH-HHHHHHH-HHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTT------------T
T ss_pred             hhccccchHHH-HHHHHHH-HHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhcc------------C
Confidence            44566666655 9999999 9999999999999999999875             578899999954            5


Q ss_pred             CCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHH
Q psy450           86 QQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTC  156 (478)
Q Consensus        86 ~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~  156 (478)
                      ...+|+|||       +|||++|  |||+.|+|++||.++|.+||+.+++++  ++..++++ +.||+.|+||||+||+.
T Consensus       284 ~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~--~l~~dvdl-~~lA~~t~G~SGADi~~  360 (405)
T 4b4t_J          284 TSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKM--NLTRGINL-RKVAEKMNGCSGADVKG  360 (405)
T ss_dssp             CCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTS--BCCSSCCH-HHHHHHCCSCCHHHHHH
T ss_pred             CCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCC--CCCccCCH-HHHHHHCCCCCHHHHHH
Confidence            677899998       9999999  999999999999999999999999988  66778888 99999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhcc
Q psy450          157 LVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYS  193 (478)
Q Consensus       157 l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~~  193 (478)
                      +|++|+..++++   +...|+++||..|++.+.+...
T Consensus       361 l~~eA~~~Air~---~~~~vt~~Df~~Al~~v~~~~~  394 (405)
T 4b4t_J          361 VCTEAGMYALRE---RRIHVTQEDFELAVGKVMNKNQ  394 (405)
T ss_dssp             HHHHHHHHHHHT---TCSBCCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHc---CCCCcCHHHHHHHHHHHhCccc
Confidence            999999999876   5678999999999999876543

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.94  E-value=4.9e-27  Score=233.06  Aligned_cols=155  Identities=13%  Similarity=0.177  Sum_probs=137.8

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhcc
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCK   85 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~   85 (478)
                      ++++|.+++.. .++.+|. .|++.+||||||||+|+++++|             .++++|++||++            .
T Consensus       252 l~sk~vGesek-~ir~lF~-~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~------------~  317 (437)
T 4b4t_I          252 LIQKYLGDGPR-LCRQIFK-VAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGF------------D  317 (437)
T ss_dssp             GCCSSSSHHHH-HHHHHHH-HHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHC------------C
T ss_pred             hhhccCchHHH-HHHHHHH-HHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCc------------C
Confidence            45566666655 9999999 9999999999999999999877             577888888854            5


Q ss_pred             CCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHH
Q psy450           86 QQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTC  156 (478)
Q Consensus        86 ~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~  156 (478)
                      ..++|+|||       ||||++|  |||++|+|++||.++|.+||+.+++++  ++..++++ +.||+.|+||||+||++
T Consensus       318 ~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~--~l~~dvdl-~~LA~~T~GfSGADI~~  394 (437)
T 4b4t_I          318 DRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKM--NLSEDVNL-ETLVTTKDDLSGADIQA  394 (437)
T ss_dssp             CSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTS--CBCSCCCH-HHHHHHCCSCCHHHHHH
T ss_pred             CCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCC--CCCCcCCH-HHHHHhCCCCCHHHHHH
Confidence            677899998       9999999  999999999999999999999999988  66778888 99999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhcc
Q psy450          157 LVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYS  193 (478)
Q Consensus       157 l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~~  193 (478)
                      +|++|+..++++   ....|+.+||..|++.+.++..
T Consensus       395 l~~eA~~~Air~---~~~~It~eDf~~Al~rv~~~~~  428 (437)
T 4b4t_I          395 MCTEAGLLALRE---RRMQVTAEDFKQAKERVMKNKV  428 (437)
T ss_dssp             HHHHHHHHHHHT---TCSCBCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHc---CCCccCHHHHHHHHHHHhCCCC
Confidence            999999999876   5677999999999999887654

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.93  E-value=3.4e-26  Score=221.64  Aligned_cols=171  Identities=24%  Similarity=0.343  Sum_probs=132.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHh----HhCCCeEEEEcCCccccCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKA----RSAAPCVVFFDELDSLAPRR  309 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~  309 (478)
                      |.++||+||||||||++|+++|++++.+++.++++++.+.+.|.++..++.+|..+    +...|+||||||+|.+.+++
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~~~~~~  115 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRM  115 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCEEEECCC------
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEEEEechhhhcCCC
Confidence            78999999999999999999999999999999999999999999999999999988    57789999999999999865


Q ss_pred             CCCCCCchhHHHHHHHHHHhhcCCC-----------CCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHH
Q psy450          310 GQEDQSSGVMDRVVSQLLAEMDGVH-----------TSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLG  378 (478)
Q Consensus       310 ~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~  378 (478)
                      ++........+.+.+.|+..+++..           ...+++||+|||+++.+|++++|+|||+..++  + |+.++|.+
T Consensus       116 ~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~--~-P~~~~r~~  192 (293)
T 3t15_A          116 GGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW--A-PTREDRIG  192 (293)
T ss_dssp             --------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEE--C-CCHHHHHH
T ss_pred             CCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEe--C-cCHHHHHH
Confidence            4333323334567788888887443           45579999999999999999999999999887  3 59999999


Q ss_pred             HHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHH
Q psy450          379 VLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIY  412 (478)
Q Consensus       379 il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~  412 (478)
                      |++.++...    +++...++..+ .+|++++|.
T Consensus       193 Il~~~~~~~----~~~~~~l~~~~-~~~~~~~l~  221 (293)
T 3t15_A          193 VCTGIFRTD----NVPAEDVVKIV-DNFPGQSID  221 (293)
T ss_dssp             HHHHHHGGG----CCCHHHHHHHH-HHSCSCCHH
T ss_pred             HHHHhccCC----CCCHHHHHHHh-CCCCcccHH
Confidence            999888653    45588888776 789998875

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.93  E-value=1.4e-26  Score=232.85  Aligned_cols=157  Identities=16%  Similarity=0.183  Sum_probs=138.5

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhcc
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCK   85 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~   85 (478)
                      ++++|.+++.. .++.+|. .|+..+||||||||+|+|+++|             .++++|++||++            .
T Consensus       251 l~~~~vGese~-~ir~lF~-~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~------------~  316 (434)
T 4b4t_M          251 LVQMYIGEGAK-LVRDAFA-LAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGF------------S  316 (434)
T ss_dssp             GCSSCSSHHHH-HHHHHHH-HHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTS------------C
T ss_pred             hhhcccchHHH-HHHHHHH-HHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhcc------------C
Confidence            45566666655 9999999 9999999999999999999876             467889999954            5


Q ss_pred             CCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHH
Q psy450           86 QQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTC  156 (478)
Q Consensus        86 ~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~  156 (478)
                      ..++|+|||       +|||++|  |||+.|+|++||.++|.+||+.+++++  ++..++++ +.||+.|+||||+||++
T Consensus       317 ~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~--~~~~dvdl-~~lA~~t~G~sGADi~~  393 (434)
T 4b4t_M          317 SDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKM--TTDDDINW-QELARSTDEFNGAQLKA  393 (434)
T ss_dssp             SSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHS--CBCSCCCH-HHHHHHCSSCCHHHHHH
T ss_pred             CCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCC--CCCCcCCH-HHHHHhCCCCCHHHHHH
Confidence            567789988       9999999  999999999999999999999999988  66778888 99999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhcccC
Q psy450          157 LVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQ  195 (478)
Q Consensus       157 l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~~~~  195 (478)
                      +|++|+..++++   +...|+++||..|+..++++..+.
T Consensus       394 l~~eA~~~a~r~---~~~~i~~~Df~~Al~~v~~~~~~~  429 (434)
T 4b4t_M          394 VTVEAGMIALRN---GQSSVKHEDFVEGISEVQARKSKS  429 (434)
T ss_dssp             HHHHHHHHHHHH---TCSSBCHHHHHHHHHSCSSSCCCC
T ss_pred             HHHHHHHHHHHc---CCCCcCHHHHHHHHHHHhCCCCcC
Confidence            999999999876   567899999999999998765543

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.93  E-value=5.4e-26  Score=227.74  Aligned_cols=155  Identities=10%  Similarity=0.163  Sum_probs=136.9

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhcc
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCK   85 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~   85 (478)
                      ++++|++++.. .++.+|. .|+..+||||||||+|+++++|             .++++|++||+.            .
T Consensus       279 L~sk~vGesek-~ir~lF~-~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~------------~  344 (467)
T 4b4t_H          279 LVQKYVGEGAR-MVRELFE-MARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGF------------D  344 (467)
T ss_dssp             GCCCSSSHHHH-HHHHHHH-HHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSS------------C
T ss_pred             hhcccCCHHHH-HHHHHHH-HHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhcc------------C
Confidence            45566666655 9999999 9999999999999999999876             567888888854            5


Q ss_pred             CCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHH
Q psy450           86 QQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTC  156 (478)
Q Consensus        86 ~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~  156 (478)
                      ..++|+|||       ||||++|  |||++|+|++||.++|.+||+.+++++  ++..++++ +.||+.|+||||+||+.
T Consensus       345 ~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~--~l~~dvdl-~~LA~~T~GfSGADI~~  421 (467)
T 4b4t_H          345 PRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSM--SVERGIRW-ELISRLCPNSTGAELRS  421 (467)
T ss_dssp             CTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTS--CBCSSCCH-HHHHHHCCSCCHHHHHH
T ss_pred             CCCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCC--CCCCCCCH-HHHHHHCCCCCHHHHHH
Confidence            677899888       9999999  999999999999999999999999988  66778888 99999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhcc
Q psy450          157 LVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYS  193 (478)
Q Consensus       157 l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~~  193 (478)
                      +|++|+..++++   +...++++||..|+.++.++..
T Consensus       422 l~~eAa~~Air~---~~~~it~~Df~~Al~kV~~g~~  455 (467)
T 4b4t_H          422 VCTEAGMFAIRA---RRKVATEKDFLKAVDKVISGYK  455 (467)
T ss_dssp             HHHHHHHHHHHH---TCSSBCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHc---CCCccCHHHHHHHHHHHhcCcc
Confidence            999999999876   5667999999999999876543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.93  E-value=4.7e-26  Score=229.21  Aligned_cols=154  Identities=10%  Similarity=0.159  Sum_probs=136.4

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhcc
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCK   85 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~   85 (478)
                      ++++|.+++.. .++.+|. .|+..+||||||||+|+++++|             .++++|++||++            .
T Consensus       251 l~sk~~Gese~-~ir~~F~-~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~------------~  316 (437)
T 4b4t_L          251 IVDKYIGESAR-IIREMFA-YAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGF------------D  316 (437)
T ss_dssp             TCCSSSSHHHH-HHHHHHH-HHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSS------------S
T ss_pred             hccccchHHHH-HHHHHHH-HHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcc------------c
Confidence            45667776655 9999999 9999999999999999999876             578899999964            5


Q ss_pred             CCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHH
Q psy450           86 QQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTC  156 (478)
Q Consensus        86 ~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~  156 (478)
                      ..++|+|||       +|||++|  |||+.|+|++||.++|.+||+.+++++  ++..++++ +.+|+.|+||||+||+.
T Consensus       317 ~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~--~~~~d~dl-~~lA~~t~G~sGADi~~  393 (437)
T 4b4t_L          317 NLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKV--KKTGEFDF-EAAVKMSDGFNGADIRN  393 (437)
T ss_dssp             CTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTS--CBCSCCCH-HHHHHTCCSCCHHHHHH
T ss_pred             CCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCC--CCCcccCH-HHHHHhCCCCCHHHHHH
Confidence            567788888       9999999  799999999999999999999999988  66778888 99999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhc
Q psy450          157 LVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRY  192 (478)
Q Consensus       157 l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~  192 (478)
                      +|++|+..++++   +...|+.+||..|++.+.+..
T Consensus       394 l~~eA~~~air~---~~~~i~~~d~~~Al~~v~~~~  426 (437)
T 4b4t_L          394 CATEAGFFAIRD---DRDHINPDDLMKAVRKVAEVK  426 (437)
T ss_dssp             HHHHHHHHHHHT---TCSSBCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHc---CCCCCCHHHHHHHHHHHHhcc
Confidence            999999999865   566799999999999987753

>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=99.92  E-value=2.1e-24  Score=238.21  Aligned_cols=372  Identities=15%  Similarity=0.168  Sum_probs=227.1

Q ss_pred             chhhhhHHHHhhhhc-CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-----------eC
Q psy450           29 YHHLNDIVKINLKKY-NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-----------IR   96 (478)
Q Consensus        29 ~~~~~~if~~~a~~~-~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-----------ld   96 (478)
                      ...++.+|+ .++.. .|+||||||+|.+.+.+.-.   ..+|....      .......+.+.+|+           +|
T Consensus       248 ~~~l~~~~~-~~~~~~~~~iL~IDEi~~l~~~~~~~---g~~~~~~~------L~~~l~~~~i~~I~at~~~~~~~~~~d  317 (854)
T 1qvr_A          248 EERLKAVIQ-EVVQSQGEVILFIDELHTVVGAGKAE---GAVDAGNM------LKPALARGELRLIGATTLDEYREIEKD  317 (854)
T ss_dssp             HHHHHHHHH-HHHTTCSSEEEEECCC----------------------------HHHHHTTCCCEEEEECHHHHHHHTTC
T ss_pred             HHHHHHHHH-HHHhcCCCeEEEEecHHHHhccCCcc---chHHHHHH------HHHHHhCCCeEEEEecCchHHhhhccC
Confidence            347888998 77764 79999999999998654110   00111000      00112234455665           49


Q ss_pred             HhHHhccccEEEeCCCCHHHHHHHHHHHHhhcC--CCCCCChhHHHHHHHhc-----CCCCHHHHHHHHHHHHHHHHHhh
Q psy450           97 KQIQKLFLKTINVLPLTEPERRLLIQYQLDCLG--GDYGFDASLVEYLSSVT-----SGFERHDLTCLVRLSVKNKMLKQ  169 (478)
Q Consensus        97 ~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~--~~~~~~~~~i~~la~~t-----~G~s~~di~~l~~~a~~~a~~~~  169 (478)
                      +++.|||+. |.|+.|+.+++.+||+.++..+.  .....+.+.+..++..+     ++|.+.....++++|+.....+.
T Consensus       318 ~aL~rRf~~-i~l~~p~~~e~~~iL~~~~~~~~~~~~~~i~~~al~~~~~ls~r~i~~~~lp~kai~lldea~a~~~~~~  396 (854)
T 1qvr_A          318 PALERRFQP-VYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAARLRMAL  396 (854)
T ss_dssp             TTTCSCCCC-EEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHhCCce-EEeCCCCHHHHHHHHHhhhhhhhhhcCCCCCHHHHHHHHHHHhhhcccccChHHHHHHHHHHHHHHHhhc
Confidence            999999985 99999999999999998876431  12223444446666644     45666677777766665443210


Q ss_pred             c-------------------------------------------------------------------------------
Q psy450          170 G-------------------------------------------------------------------------------  170 (478)
Q Consensus       170 ~-------------------------------------------------------------------------------  170 (478)
                      .                                                                               
T Consensus       397 ~~~p~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  476 (854)
T 1qvr_A          397 ESAPEEIDALERKKLQLEIEREALKKEKDPDSQERLKAIEAEIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRRE  476 (854)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHSSCSSHHHHSCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCchhHHHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            0                                                                               


Q ss_pred             ---------------------------------------CCCCCCCHHHHHHHHHHhhhhcccCCCC------CCCCCCC
Q psy450          171 ---------------------------------------INKRDLQKEDFQQIYDDLQSRYSDQLDA------PSVPNVS  205 (478)
Q Consensus       171 ---------------------------------------~~~~~it~~d~~~a~~~~~~~~~~~~~~------~~~~~~~  205 (478)
                                                             .-..+++.+++...+....+........      ...+...
T Consensus       477 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~l~~~v~~~~~ip~~~~~~~~~~~l~~l~~~l  556 (854)
T 1qvr_A          477 IELAERQYDLNRAAELRYGELPKLEAEVEALSEKLRGARFVRLEVTEEDIAEIVSRWTGIPVSKLLEGEREKLLRLEEEL  556 (854)
T ss_dssp             HHHHTTTTCHHHHHHHHTTHHHHHHHHHHHHHHHSSSCSSCCSEECHHHHHHHHHTTSSCHHHHTTCCHHHHHHSHHHHH
T ss_pred             HHHHHhcccHHHHHHHhhhhhHHHHHHHHHHHhhhcccccccCCcCHHHHHHHHHHHhCCChHhhcHHHHHHHHHHHHHH
Confidence                                                   0012233333333333222110000000      0001112


Q ss_pred             cccccCcHHHHHHHHHHHHhhhhh---CCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh------
Q psy450          206 WEDIGGLSKLKAEILSTFRGVNRT---SGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK------  273 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~~~~---~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~------  273 (478)
                      +++++|++.+++.+...+......   ++.+..++||+||||||||++|+++++.+   +.+++.++|+++...      
T Consensus       557 ~~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~~~~~s~l  636 (854)
T 1qvr_A          557 HKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRL  636 (854)
T ss_dssp             HHHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC
T ss_pred             hcccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccchhHHHHH
Confidence            457899999999998888766432   22223589999999999999999999998   789999999876432      


Q ss_pred             ------hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCC
Q psy450          274 ------YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQD  338 (478)
Q Consensus       274 ------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~  338 (478)
                            |+|...  ...+....+...++||||||++.+.             ..+++.|+..++...         +-.+
T Consensus       637 ~g~~~~~~G~~~--~g~l~~~~~~~~~~vl~lDEi~~l~-------------~~~~~~Ll~~l~~~~~~~~~g~~vd~~~  701 (854)
T 1qvr_A          637 IGAPPGYVGYEE--GGQLTEAVRRRPYSVILFDEIEKAH-------------PDVFNILLQILDDGRLTDSHGRTVDFRN  701 (854)
T ss_dssp             ----------------CHHHHHHHCSSEEEEESSGGGSC-------------HHHHHHHHHHHTTTEECCSSSCCEECTT
T ss_pred             cCCCCCCcCccc--cchHHHHHHhCCCeEEEEecccccC-------------HHHHHHHHHHhccCceECCCCCEeccCC
Confidence                  122222  1223333444556899999999886             467788888887432         1246


Q ss_pred             eEEEEEcCCC--------------------------CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcC-----
Q psy450          339 VFILGATNRV--------------------------DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKF-----  387 (478)
Q Consensus       339 v~vI~ttn~~--------------------------~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~-----  387 (478)
                      ++||+|||..                          ..+.|.|+.  ||+..+.+.+ ++.++...|++.++...     
T Consensus       702 ~iiI~tsn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~--Rl~~~i~~~p-l~~edi~~i~~~~l~~~~~~~~  778 (854)
T 1qvr_A          702 TVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRP-LTKEQIRQIVEIQLSYLRARLA  778 (854)
T ss_dssp             EEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCC-CCHHHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEecCcChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHH--hcCeEEeCCC-CCHHHHHHHHHHHHHHHHHHHH
Confidence            8899999972                          246677777  9998888864 78999999998877521     


Q ss_pred             ------CCCCCCCHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy450          388 ------KLSDDVSLDSLVHHFP-SQMSGADIYSICSNAWTRAIRRIITSA  430 (478)
Q Consensus       388 ------~~~~~~~~~~la~~~~-~~~sg~di~~l~~~a~~~a~~r~~~~~  430 (478)
                            .++++ -+..|+.+.. ..++.+++.++++.+...++.+.+..+
T Consensus       779 ~~~~~~~~~~~-a~~~L~~~~~~~~gn~R~L~~~i~~~~~~~~~~~i~~~  827 (854)
T 1qvr_A          779 EKRISLELTEA-AKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILAG  827 (854)
T ss_dssp             TTTCEEEECHH-HHHHHHHHHCBTTTBTSTHHHHHHHHTHHHHHHHHHHT
T ss_pred             hCCceEEECHH-HHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHHHhC
Confidence                  12222 2556666531 146778999999999998888876543

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.91  E-value=6.2e-25  Score=220.77  Aligned_cols=151  Identities=15%  Similarity=0.221  Sum_probs=133.6

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhcc
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCK   85 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~   85 (478)
                      ++++|.+++.. +++.+|. .|++.+||||||||+|++++.|             .++++|++||++            .
T Consensus       242 l~~~~~Ge~e~-~ir~lF~-~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~------------~  307 (428)
T 4b4t_K          242 FVHKYLGEGPR-MVRDVFR-LARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGF------------D  307 (428)
T ss_dssp             TCCSSCSHHHH-HHHHHHH-HHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHS------------C
T ss_pred             hhccccchhHH-HHHHHHH-HHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCC------------C
Confidence            45566666655 9999999 9999999999999999999876             688999999954            5


Q ss_pred             CCCcEEEEe-------eCHhHHh--ccccEEEeC-CCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHH
Q psy450           86 QQHKKKLVL-------IRKQIQK--LFLKTINVL-PLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLT  155 (478)
Q Consensus        86 ~~~~v~via-------ld~al~r--Rf~~~i~~~-~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~  155 (478)
                      ...+|+|||       +|||++|  |||+.|+|| +||.++|.+||+.+++++  ++..++++ +.+|..|+||||+||+
T Consensus       308 ~~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~--~l~~~~dl-~~lA~~t~G~sgadi~  384 (428)
T 4b4t_K          308 QSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKM--SLAPEADL-DSLIIRNDSLSGAVIA  384 (428)
T ss_dssp             SSCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSS--CBCTTCCH-HHHHHHTTTCCHHHHH
T ss_pred             CCCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCC--CCCcccCH-HHHHHHCCCCCHHHHH
Confidence            567788888       9999999  999999996 899999999999999988  66778888 9999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          156 CLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       156 ~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      .+|++|+..++++   +...|+++||..|+....
T Consensus       385 ~l~~eA~~~a~r~---~~~~i~~~d~~~A~~~~~  415 (428)
T 4b4t_K          385 AIMQEAGLRAVRK---NRYVILQSDLEEAYATQV  415 (428)
T ss_dssp             HHHHHHHHHHHHT---TCSSBCHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHC---CCCCCCHHHHHHHHHHhh
Confidence            9999999999876   567899999999998653

>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=99.88  E-value=7.1e-25  Score=225.53  Aligned_cols=206  Identities=20%  Similarity=0.285  Sum_probs=141.4

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC--CcEEEEechhhhhhhhcc
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR--MNFLAVKGPELLNKYIGQ  277 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~--~~~~~v~~~~l~~~~~g~  277 (478)
                      ..|...|++++|++++++.+...+...... ..+++++||+||||||||++|+++|++++  .+|+.++++++.+.+.|.
T Consensus        30 ~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~-~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~~~~~~~  108 (456)
T 2c9o_A           30 GLAKQAASGLVGQENAREACGVIVELIKSK-KMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKK  108 (456)
T ss_dssp             SCBCSEETTEESCHHHHHHHHHHHHHHHTT-CCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGCCSSSCH
T ss_pred             cChhhchhhccCHHHHHHHHHHHHHHHHhC-CCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHHHHhhhh
Confidence            356778999999999999999887665432 22368999999999999999999999999  999999999999999999


Q ss_pred             hHHHHHHHHHHh---HhCCCeEEEEcCCccccCCCCCCCCCc--hhHH---------------HHHHHHHHhhc--CCCC
Q psy450          278 SEENIRNVFLKA---RSAAPCVVFFDELDSLAPRRGQEDQSS--GVMD---------------RVVSQLLAEMD--GVHT  335 (478)
Q Consensus       278 ~~~~~~~~~~~a---~~~~p~il~iDeid~l~~~~~~~~~~~--~~~~---------------~~~~~ll~~l~--~~~~  335 (478)
                      ++. ++..|..+   +...|+||||||+|.++++++....+.  ....               ++...++..++  +...
T Consensus       109 ~~~-~~~~f~~a~~~~~~~~~il~iDEid~l~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ll~~l~~~~~~~  187 (456)
T 2c9o_A          109 TEV-LMENFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKERVEA  187 (456)
T ss_dssp             HHH-HHHHHHHTEEEEEEEEEEEEEEEEEEEEEC--------------CEEEEEEETTEEEEEEECHHHHHHHHHTTCCT
T ss_pred             hHH-HHHHHHHHHhhhhcCCcEEEEechhhcccccCCCCCCCcchHHHHHHHHHhccccchhHhhhHHHHHHHhhccCCC
Confidence            987 99999999   778899999999999998875432110  0000               11233444443  3333


Q ss_pred             CCCeEEEEEcCCCCCCCccccCCCCCCe--EEEeCCCC-CHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHH
Q psy450          336 SQDVFILGATNRVDLLDPAILRPGRLDK--SLYVGLYE-DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIY  412 (478)
Q Consensus       336 ~~~v~vI~ttn~~~~ld~~l~~~~Rf~~--~i~~~~pp-~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~  412 (478)
                      ...++|++|||+++.+|++++|+|||+.  .+++++|. +.++|.+|++.+...       +++.++..+ .|  |+|+.
T Consensus       188 ~~~v~i~attn~~~~ld~a~~r~~rfd~~~~~~v~~p~~~~~~R~~il~~~~~~-------dl~~~a~~t-~g--gadl~  257 (456)
T 2c9o_A          188 GDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVHKKKEIIQDVTLH-------DLDVANARP-QG--GQDIL  257 (456)
T ss_dssp             TEEEEEETTTCCEEEEEEETTSCCTTSCSSSSEECCCCSCSEEEEEEEEEEEHH-------HHHHTC-------------
T ss_pred             CCEEEEEcCCCCcccCChhhcCCcccCcceeEecCCCchhHHHHHHHHHHHHHH-------HHHHHHHhC-CC--hhHHH
Confidence            3446667999999999999999999998  66777742 335566666543321       477777766 67  88999


Q ss_pred             HHHHH
Q psy450          413 SICSN  417 (478)
Q Consensus       413 ~l~~~  417 (478)
                      ++|..
T Consensus       258 ~l~~~  262 (456)
T 2c9o_A          258 SMMGQ  262 (456)
T ss_dssp             -----
T ss_pred             HHHhh
Confidence            98854

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.86  E-value=1e-21  Score=191.79  Aligned_cols=230  Identities=19%  Similarity=0.220  Sum_probs=169.9

Q ss_pred             ccccCcHHHHHHHHHHHHhhhh-----hC----CCCCceEEEeCCCCChHHHHHHHHHHHh-------CCcEEEEechhh
Q psy450          207 EDIGGLSKLKAEILSTFRGVNR-----TS----GLKRSGLLLYGPPGTGKTLIAKAVATEC-------RMNFLAVKGPEL  270 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~-----~~----~~~~~~iLl~Gp~GtGKT~la~~la~~~-------~~~~~~v~~~~l  270 (478)
                      .+++|++++++.+.+.+..+..     ..    +..+.++||+||||||||++|+++|+.+       ..+++.+++.++
T Consensus        31 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l  110 (309)
T 3syl_A           31 RELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDL  110 (309)
T ss_dssp             HHSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGT
T ss_pred             HHccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHh
Confidence            3799999999999988876531     11    2235679999999999999999999988       348999999999


Q ss_pred             hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC-
Q psy450          271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD-  349 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~-  349 (478)
                      .+.+.|.....+..+|..+   .++||||||+|.+...+++.    ......++.|+..++.  ...++++|++||.+. 
T Consensus       111 ~~~~~g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~----~~~~~~~~~Ll~~l~~--~~~~~~~i~~~~~~~~  181 (309)
T 3syl_A          111 VGQYIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNER----DYGQEAIEILLQVMEN--NRDDLVVILAGYADRM  181 (309)
T ss_dssp             CCSSTTCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC-------CCTHHHHHHHHHHHHH--CTTTCEEEEEECHHHH
T ss_pred             hhhcccccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcc----cccHHHHHHHHHHHhc--CCCCEEEEEeCChHHH
Confidence            9999999998888888876   35699999999998654321    1225677888888874  345688888888653 


Q ss_pred             ----CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC-HHHHHHhc------CCCCCHHHHHHHHHHH
Q psy450          350 ----LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS-LDSLVHHF------PSQMSGADIYSICSNA  418 (478)
Q Consensus       350 ----~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~-~~~la~~~------~~~~sg~di~~l~~~a  418 (478)
                          .+++++++  ||+..++++. |+.+++..|++.+++..+..-+.+ +..++..+      ...-+++++.+++..|
T Consensus       182 ~~~~~~~~~l~~--R~~~~i~~~~-~~~~~~~~il~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~gn~r~l~~~l~~a  258 (309)
T 3syl_A          182 ENFFQSNPGFRS--RIAHHIEFPD-YSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRRNQPHFANARSIRNALDRA  258 (309)
T ss_dssp             HHHHHHSTTHHH--HEEEEEEECC-CCHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHTTSSSCCHHHHHHHHHHHH
T ss_pred             HHHHhhCHHHHH--hCCeEEEcCC-cCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHHH
Confidence                25789999  9999999986 799999999999998765432222 44444432      1223478999999999


Q ss_pred             HHHHHHHHHhcC--CCCCCCCccccHHHHHhc
Q psy450          419 WTRAIRRIITSA--PQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       419 ~~~a~~r~~~~~--~~~~~~~~~it~~d~~~A  448 (478)
                      ...+..+.....  .....+-..++.+||..+
T Consensus       259 ~~~~~~r~~~~~~~~~~~~~l~~i~~~d~~~~  290 (309)
T 3syl_A          259 RLRQANRLFTASSGPLDARALSTIAEEDIRAS  290 (309)
T ss_dssp             HHHHHHHHHHC---CEEHHHHHEECHHHHHTS
T ss_pred             HHHHHHHHHhccCCCCCHHHHhhccHHHhccc
Confidence            999888877531  111122335677777765

>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=99.82  E-value=4.1e-20  Score=193.47  Aligned_cols=229  Identities=21%  Similarity=0.310  Sum_probs=158.4

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh---------
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN---------  272 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~---------  272 (478)
                      ....+++++|++++++.+.+.+.........++.+++|+||||||||++|++++..++.++..+++..+..         
T Consensus        76 ~~~l~~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g~~~  155 (543)
T 3m6a_A           76 GRLLDEEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRR  155 (543)
T ss_dssp             GGTHHHHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC------------
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhhHHH
Confidence            34446779999999999988776655444445778999999999999999999999999999998866433         


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC-------------CCCe
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT-------------SQDV  339 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~-------------~~~v  339 (478)
                      .+.|.....+...|..+....| |+||||+|.+.+...         ....+.|+..++....             ..++
T Consensus       156 ~~ig~~~~~~~~~~~~a~~~~~-vl~lDEid~l~~~~~---------~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v  225 (543)
T 3m6a_A          156 TYVGAMPGRIIQGMKKAGKLNP-VFLLDEIDKMSSDFR---------GDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKV  225 (543)
T ss_dssp             --------CHHHHHHTTCSSSE-EEEEEESSSCC------------------CCGGGTCTTTTTBCCCSSSCCCCBCSSC
T ss_pred             HHhccCchHHHHHHHHhhccCC-EEEEhhhhhhhhhhc---------cCHHHHHHHHHhhhhcceeecccCCeeecccce
Confidence            4566666677778887766666 999999999986532         1134556666653221             1568


Q ss_pred             EEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH-----hcCCCCC------CCCHHHHHHhcCCCCCH
Q psy450          340 FILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV-----RKFKLSD------DVSLDSLVHHFPSQMSG  408 (478)
Q Consensus       340 ~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~-----~~~~~~~------~~~~~~la~~~~~~~sg  408 (478)
                      +||+|||.++.+++++++  ||+ .+.++. |+.+++..|++.++     +..++..      +..+..++..++...+.
T Consensus       226 ~iI~ttN~~~~l~~aL~~--R~~-vi~~~~-~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~~~~~~~~~v  301 (543)
T 3m6a_A          226 LFIATANNLATIPGPLRD--RME-IINIAG-YTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDIIRYYTREAGV  301 (543)
T ss_dssp             EEEEECSSTTTSCHHHHH--HEE-EEECCC-CCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHHHHHCCCSSS
T ss_pred             EEEeccCccccCCHHHHh--hcc-eeeeCC-CCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHHHhCChhhch
Confidence            999999999999999999  995 688886 68999999998765     2222211      12255666655444556


Q ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          409 ADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       409 ~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      +++++.+..++..+..+.....    .....||.+|+.++
T Consensus       302 R~L~~~i~~~~~~aa~~~~~~~----~~~~~It~~~l~~~  337 (543)
T 3m6a_A          302 RSLERQLAAICRKAAKAIVAEE----RKRITVTEKNLQDF  337 (543)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTC----CSCCEECTTTTHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHhcC----CcceecCHHHHHHH
Confidence            7888888877777776665421    24567999999999

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.81  E-value=3.9e-19  Score=177.71  Aligned_cols=217  Identities=18%  Similarity=0.186  Sum_probs=155.1

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC--cEEEEechhhhhhhh---
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM--NFLAVKGPELLNKYI---  275 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~--~~~~v~~~~l~~~~~---  275 (478)
                      .|...|++++|++.+++.+..+....... ..+++++||+||||||||++|+++++.++.  +++.+++..+.+.+.   
T Consensus        38 ~p~~~~~~ivG~~~~~~~l~~l~~~~~~~-~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~  116 (368)
T 3uk6_A           38 EPRQASQGMVGQLAARRAAGVVLEMIREG-KIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKT  116 (368)
T ss_dssp             CBCSEETTEESCHHHHHHHHHHHHHHHTT-CCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGGGSCSSSCHH
T ss_pred             CcCcchhhccChHHHHHHHHHHHHHHHcC-CCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchhhhhcccchh
Confidence            45666999999999999887766555432 222578999999999999999999999975  788888765332221   


Q ss_pred             ----------------------------------------------cchHHHHHHHHHHhHh-----C----CCeEEEEc
Q psy450          276 ----------------------------------------------GQSEENIRNVFLKARS-----A----APCVVFFD  300 (478)
Q Consensus       276 ----------------------------------------------g~~~~~~~~~~~~a~~-----~----~p~il~iD  300 (478)
                                                                    |.....++..+..+..     .    .|+|||||
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~ID  196 (368)
T 3uk6_A          117 EALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFID  196 (368)
T ss_dssp             HHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEE
T ss_pred             HHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEh
Confidence                                                          1223344445544322     1    26799999


Q ss_pred             CCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEc-----------CCCCCCCccccCCCCCCeEEEeCC
Q psy450          301 ELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGAT-----------NRVDLLDPAILRPGRLDKSLYVGL  369 (478)
Q Consensus       301 eid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~tt-----------n~~~~ld~~l~~~~Rf~~~i~~~~  369 (478)
                      |+|.+.             ....+.|+..++..  ..+++++++.           |.+..+++++++  ||.. +.++.
T Consensus       197 Ei~~l~-------------~~~~~~L~~~le~~--~~~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~s--R~~~-i~~~~  258 (368)
T 3uk6_A          197 EVHMLD-------------IESFSFLNRALESD--MAPVLIMATNRGITRIRGTSYQSPHGIPIDLLD--RLLI-VSTTP  258 (368)
T ss_dssp             SGGGSB-------------HHHHHHHHHHTTCT--TCCEEEEEESCSEEECBTSSCEEETTCCHHHHT--TEEE-EEECC
T ss_pred             hccccC-------------hHHHHHHHHHhhCc--CCCeeeeecccceeeeeccCCCCcccCCHHHHh--hccE-EEecC
Confidence            999986             34567777777643  2345555554           347789999999  9976 78875


Q ss_pred             CCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          370 YEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       370 pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                       |+.+++..|++..+...+..-+ ..+..++..+ .+.+++++.++|+.|...|..+.          ...||.+|+.+|
T Consensus       259 -~~~~e~~~il~~~~~~~~~~~~~~~l~~l~~~~-~~G~~r~~~~ll~~a~~~A~~~~----------~~~It~~~v~~a  326 (368)
T 3uk6_A          259 -YSEKDTKQILRIRCEEEDVEMSEDAYTVLTRIG-LETSLRYAIQLITAASLVCRKRK----------GTEVQVDDIKRV  326 (368)
T ss_dssp             -CCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHH-HHSCHHHHHHHHHHHHHHHHHTT----------CSSBCHHHHHHH
T ss_pred             -CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHh-cCCCHHHHHHHHHHHHHHHHHhC----------CCCCCHHHHHHH
Confidence             6999999999988876443322 2266677765 43688899999999988876653          557999999999

>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=99.81  E-value=6.1e-19  Score=171.81  Aligned_cols=233  Identities=17%  Similarity=0.261  Sum_probs=159.0

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhC--------CCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh-hhhcc
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTS--------GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN-KYIGQ  277 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~--------~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~-~~~g~  277 (478)
                      ++++|++.+++.+...+..+....        +..+.++||+||||||||++|+++++.++.+++.++++++.. .+.|.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~   94 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGG
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCc
Confidence            357999999999998887642221        223678999999999999999999999999999999988765 44443


Q ss_pred             h-HHHHHHHHHHh-----HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC--------CCCCeEEEE
Q psy450          278 S-EENIRNVFLKA-----RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH--------TSQDVFILG  343 (478)
Q Consensus       278 ~-~~~~~~~~~~a-----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~~~v~vI~  343 (478)
                      . ...++.++..+     ....++||||||+|.+.+.....+ .......+.+.|+..+++..        ...++++|+
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~-~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~i~  173 (310)
T 1ofh_A           95 EVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSG-ADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIA  173 (310)
T ss_dssp             STTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCS-SHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEE
T ss_pred             cHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCccccccc-cchhHHHHHHHHHHHhcCCeEecccccccCCcEEEEE
Confidence            2 34456655532     112357999999999987653221 11122234677777777532        234678888


Q ss_pred             E----cCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHH----H-------HhcCC----CCCCCCHHHHHHhcC-
Q psy450          344 A----TNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKA----V-------VRKFK----LSDDVSLDSLVHHFP-  403 (478)
Q Consensus       344 t----tn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~----~-------~~~~~----~~~~~~~~~la~~~~-  403 (478)
                      +    ++.+..+++++++  ||+..+.++. |+.+++..|++.    +       +...+    ++++ .+..++.... 
T Consensus       174 ~~~~~~~~~~~l~~~l~~--R~~~~i~~~~-~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~-a~~~l~~~~~~  249 (310)
T 1ofh_A          174 SGAFQVARPSDLIPELQG--RLPIRVELTA-LSAADFERILTEPHASLTEQYKALMATEGVNIAFTTD-AVKKIAEAAFR  249 (310)
T ss_dssp             EECCSSSCGGGSCHHHHH--TCCEEEECCC-CCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHH-HHHHHHHHHHH
T ss_pred             cCCcccCCcccCCHHHHh--hCCceEEcCC-cCHHHHHHHHHhhHHHHHHHHHHHHHhcCCeeccCHH-HHHHHHHHhhh
Confidence            8    4577889999998  9998899986 789999999982    2       11122    2222 2555665541 


Q ss_pred             -----CCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          404 -----SQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       404 -----~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                           .+.+.+++.++++.+...+..+....    ......||.+|+.+|
T Consensus       250 ~~~~~~~g~~R~l~~~l~~~~~~~~~~~~~~----~~~~~~i~~~~v~~~  295 (310)
T 1ofh_A          250 VNEKTENIGARRLHTVMERLMDKISFSASDM----NGQTVNIDAAYVADA  295 (310)
T ss_dssp             HHHHSCCCTTHHHHHHHHHHSHHHHHHGGGC----TTCEEEECHHHHHHH
T ss_pred             hcccccccCcHHHHHHHHHHHHhhhcCCccc----cCCEEEEeeHHHHHH
Confidence                 14567888888888876655443211    112335999999999

>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=99.81  E-value=6e-20  Score=189.10  Aligned_cols=179  Identities=20%  Similarity=0.270  Sum_probs=135.7

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCC
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQH   88 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~   88 (478)
                      +.++|+++... +++.+|. .|...+||||||||+|++++++          .++.|+..||+.            ....
T Consensus       274 l~~~~~g~~~~-~~~~~f~-~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~------------~~~~  339 (489)
T 3hu3_A          274 IMSKLAGESES-NLRKAFE-EAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGL------------KQRA  339 (489)
T ss_dssp             HHTSCTTHHHH-HHHHHHH-HHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHS------------CTTS
T ss_pred             hhhhhcchhHH-HHHHHHH-HHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhcc------------ccCC
Confidence            34556655544 8899999 9999999999999999999854          677888888853            3456


Q ss_pred             cEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHH
Q psy450           89 KKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVR  159 (478)
Q Consensus        89 ~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~  159 (478)
                      .|+||+       +|++++|  ||+..++|+.|+.++|.+||+.+++.+  .+..+.++ ..++..+.||+++|+..+|+
T Consensus       340 ~v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~--~l~~~~~l-~~la~~t~g~s~~dL~~L~~  416 (489)
T 3hu3_A          340 HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNM--KLADDVDL-EQVANETHGHVGADLAALCS  416 (489)
T ss_dssp             CEEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTS--CBCTTCCH-HHHHHTCTTCCHHHHHHHHH
T ss_pred             ceEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcC--CCcchhhH-HHHHHHccCCcHHHHHHHHH
Confidence            688888       9999999  999999999999999999999999877  55566676 99999999999999999999


Q ss_pred             HHHHHHHHhhcC--------------CCCCCCHHHHHHHHHHhhhhcccCCCCCCCCCCCcccccCcHHH
Q psy450          160 LSVKNKMLKQGI--------------NKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKL  215 (478)
Q Consensus       160 ~a~~~a~~~~~~--------------~~~~it~~d~~~a~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~  215 (478)
                      +|+..+.++...              ....++.+||..|++.++|+..+.. ....|+++|+|++|..+.
T Consensus       417 ~A~~~a~r~~~~~i~~~~~~~~~~~~~~~~vt~edf~~Al~~~~ps~~re~-~~e~p~v~W~dig~~~~~  485 (489)
T 3hu3_A          417 EAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRET-VVEVPQVTWEDIGGRSHH  485 (489)
T ss_dssp             HHHHHHHHTTTTTCCTTCSSCCHHHHHHCCBCHHHHHHHHTSHHHHHHHGG-GC----------------
T ss_pred             HHHHHHHHhccccccccccccchhhcccCcCCHHHHHHHHHhCCchhhhcc-cccCCCCCHHHcCCCccc
Confidence            999999865211              1246899999999999999877654 578999999999998653

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.80  E-value=2.3e-18  Score=170.14  Aligned_cols=212  Identities=15%  Similarity=0.193  Sum_probs=155.3

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchH
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSE  279 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~  279 (478)
                      .+.+.+|++++|.+.+++.+...+...... +.++.++||+||||||||++|+++++.++.+++.+++..+.      ..
T Consensus        22 ~~~p~~~~~iiG~~~~~~~l~~~l~~~~~~-~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~------~~   94 (338)
T 3pfi_A           22 SLRPSNFDGYIGQESIKKNLNVFIAAAKKR-NECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIE------KS   94 (338)
T ss_dssp             -CCCCSGGGCCSCHHHHHHHHHHHHHHHHT-TSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCC------SH
T ss_pred             ccCCCCHHHhCChHHHHHHHHHHHHHHHhc-CCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhcc------ch
Confidence            344568999999999999999888776432 33366799999999999999999999999999999987552      22


Q ss_pred             HHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC----------------CCCeEEEE
Q psy450          280 ENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT----------------SQDVFILG  343 (478)
Q Consensus       280 ~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~----------------~~~v~vI~  343 (478)
                      ..+...+..  ...+++|||||+|.+.             ......|+..++....                .+++.+|+
T Consensus        95 ~~~~~~~~~--~~~~~vl~lDEi~~l~-------------~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  159 (338)
T 3pfi_A           95 GDLAAILTN--LSEGDILFIDEIHRLS-------------PAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIG  159 (338)
T ss_dssp             HHHHHHHHT--CCTTCEEEEETGGGCC-------------HHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEE
T ss_pred             hHHHHHHHh--ccCCCEEEEechhhcC-------------HHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEE
Confidence            334444433  2456899999999986             2345555555554220                12489999


Q ss_pred             EcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy450          344 ATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWTRA  422 (478)
Q Consensus       344 ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~~a  422 (478)
                      +||.+..+++++++  ||+..+.++. |+.+++..+++..+...+...+ ..+..++..+ . -+.+++.+++..+...+
T Consensus       160 atn~~~~l~~~L~~--R~~~~i~l~~-~~~~e~~~il~~~~~~~~~~~~~~~~~~l~~~~-~-G~~r~l~~~l~~~~~~a  234 (338)
T 3pfi_A          160 ATTRAGMLSNPLRD--RFGMQFRLEF-YKDSELALILQKAALKLNKTCEEKAALEIAKRS-R-STPRIALRLLKRVRDFA  234 (338)
T ss_dssp             EESCGGGSCHHHHT--TCSEEEECCC-CCHHHHHHHHHHHHHHTTCEECHHHHHHHHHTT-T-TCHHHHHHHHHHHHHHH
T ss_pred             eCCCccccCHHHHh--hcCEEeeCCC-cCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH-C-cCHHHHHHHHHHHHHHH
Confidence            99999999999999  9999999986 6899999999988877654322 2256666644 3 35678888888776554


Q ss_pred             HHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          423 IRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       423 ~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      ...          ....|+.+++..+
T Consensus       235 ~~~----------~~~~i~~~~~~~~  250 (338)
T 3pfi_A          235 DVN----------DEEIITEKRANEA  250 (338)
T ss_dssp             HHT----------TCSEECHHHHHHH
T ss_pred             Hhh----------cCCccCHHHHHHH
Confidence            432          1345788888777

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.80  E-value=2.7e-19  Score=175.42  Aligned_cols=156  Identities=14%  Similarity=0.217  Sum_probs=127.0

Q ss_pred             HhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCCcE
Q psy450           21 TNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQHKK   90 (478)
Q Consensus        21 ~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v   90 (478)
                      ++|.++. ...++.+|. .|+..+||||||||+|++++.|          .+++++..||++.           ....+|
T Consensus        84 ~~~~g~~-~~~~~~lf~-~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~-----------~~~~~v  150 (322)
T 1xwi_A           84 SKWLGES-EKLVKNLFQ-LARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVG-----------VDNDGI  150 (322)
T ss_dssp             CSSCCSC-HHHHHHHHH-HHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSS-----------SCCTTE
T ss_pred             hhhhhHH-HHHHHHHHH-HHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhccc-----------ccCCCE
Confidence            3445554 448999999 9999999999999999998754          6788888898642           134668


Q ss_pred             EEEe-------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHH
Q psy450           91 KLVL-------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVK  163 (478)
Q Consensus        91 ~via-------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~  163 (478)
                      +|||       +|++++|||++.+++++|+.++|.+||+.++...+..+ .+.++ +.|++.|+||+|+||..+|++|+.
T Consensus       151 ~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l-~~~~l-~~la~~t~G~sgadl~~l~~~A~~  228 (322)
T 1xwi_A          151 LVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSL-TEADF-RELGRKTDGYSGADISIIVRDALM  228 (322)
T ss_dssp             EEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCC-CHHHH-HHHHHTCTTCCHHHHHHHHHHHHT
T ss_pred             EEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCC-CHHHH-HHHHHHcCCCCHHHHHHHHHHHHH
Confidence            8887       99999999999999999999999999999998763222 34455 999999999999999999999999


Q ss_pred             HHHHhhc----------------------------------------------CCCCCCCHHHHHHHHHHhhhh
Q psy450          164 NKMLKQG----------------------------------------------INKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       164 ~a~~~~~----------------------------------------------~~~~~it~~d~~~a~~~~~~~  191 (478)
                      .++++..                                              ....+|+++||..|++.++|+
T Consensus       229 ~a~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~df~~al~~~~ps  302 (322)
T 1xwi_A          229 QPVRKVQSATHFKKVRGPSRADPNHLVDDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMSDMLRSLSNTKPT  302 (322)
T ss_dssp             HHHHHHHHCSEEEEEEEECSSCTTSEEEEEEEECCSSSTTEEECCGGGSCGGGBCCCCBCHHHHHHHHHTCCCS
T ss_pred             HHHHHHHhhhhhhhhccccccccccccccccccccccccchhhccccccccccccCCCcCHHHHHHHHHhCCCC
Confidence            8876411                                              012479999999999988765

>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=99.79  E-value=1.1e-18  Score=174.23  Aligned_cols=235  Identities=19%  Similarity=0.313  Sum_probs=161.4

Q ss_pred             cccCcHHHHHHHHHHHHhhhhh---------CCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh-hhcc
Q psy450          208 DIGGLSKLKAEILSTFRGVNRT---------SGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK-YIGQ  277 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~---------~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~-~~g~  277 (478)
                      .++|++.+++.+...+......         ...++.++||+||||||||++|+++|+.++.+|+.++++++... +.|.
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~   95 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGE   95 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhcccccccc
Confidence            3689999999999887543211         11236789999999999999999999999999999999988743 6776


Q ss_pred             h-HHHHHHHHHHh----HhCCCeEEEEcCCccccCCCCCCCCCchh-HHHHHHHHHHhhcCCC-----------------
Q psy450          278 S-EENIRNVFLKA----RSAAPCVVFFDELDSLAPRRGQEDQSSGV-MDRVVSQLLAEMDGVH-----------------  334 (478)
Q Consensus       278 ~-~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~~-~~~~~~~ll~~l~~~~-----------------  334 (478)
                      . ...+..++..+    ....++||||||+|.+.+.+.+.+..... ...+++.|+..|++..                 
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~~~~~~~  175 (363)
T 3hws_A           96 DVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFL  175 (363)
T ss_dssp             HHTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC----------------CC
T ss_pred             cHHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCccccccCCCceE
Confidence            5 55667777665    33456899999999999776543322222 2347888888888421                 


Q ss_pred             --CCCCeEEEEEcCCC----------CC-----------------------------------CCccccCCCCCCeEEEe
Q psy450          335 --TSQDVFILGATNRV----------DL-----------------------------------LDPAILRPGRLDKSLYV  367 (478)
Q Consensus       335 --~~~~v~vI~ttn~~----------~~-----------------------------------ld~~l~~~~Rf~~~i~~  367 (478)
                        ...++++|+++|..          ..                                   +.++|+.  ||+..+.+
T Consensus       176 ~i~tsn~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~--R~~~~~~~  253 (363)
T 3hws_A          176 QVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIG--RLPVVATL  253 (363)
T ss_dssp             CCCTTSSEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHT--TCCEEEEC
T ss_pred             EEECCCceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhc--ccCeeeec
Confidence              12345566665532          11                                   6788887  99998888


Q ss_pred             CCCCCHHHHHHHHHH----HHh-------cCCCC---CCCCHHHHHHh-cCCCCCHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy450          368 GLYEDRISQLGVLKA----VVR-------KFKLS---DDVSLDSLVHH-FPSQMSGADIYSICSNAWTRAIRRIITSAPQ  432 (478)
Q Consensus       368 ~~pp~~~~r~~il~~----~~~-------~~~~~---~~~~~~~la~~-~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~  432 (478)
                      .. ++.+++.+|+..    +++       ..+..   .+.-++.|+.+ +...+.+++|++++..+...++.+.....  
T Consensus       254 ~p-l~~~~~~~I~~~~~~~l~~~~~~~~~~~~~~l~~~~~a~~~L~~~~~~~~~gaR~L~~~ie~~~~~~l~~~~~~~--  330 (363)
T 3hws_A          254 NE-LSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSME--  330 (363)
T ss_dssp             CC-CCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTTTTHHHHHHHHHHHHHHSTTTCC--
T ss_pred             CC-CCHHHHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHhhcCCccCchHHHHHHHHHHHHHHHhccccc--
Confidence            75 799999998875    221       11221   11125566653 33456678999999999988887653221  


Q ss_pred             CCCCCccccHHHHHhc
Q psy450          433 VKSAPVIVTMDDFLGA  448 (478)
Q Consensus       433 ~~~~~~~it~~d~~~A  448 (478)
                       ......||.+++.+.
T Consensus       331 -~~~~~~I~~~~v~~~  345 (363)
T 3hws_A          331 -DVEKVVIDESVIDGQ  345 (363)
T ss_dssp             -CSEEEECHHHHTTCC
T ss_pred             -CCceeEEcHHHHhCc
Confidence             113456889898887

>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=99.79  E-value=2.6e-18  Score=164.48  Aligned_cols=205  Identities=17%  Similarity=0.231  Sum_probs=136.0

Q ss_pred             CcccccCcHHHHHHHHHH----HHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh-hhcchH
Q psy450          205 SWEDIGGLSKLKAEILST----FRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK-YIGQSE  279 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~----~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~-~~g~~~  279 (478)
                      ..+.++|.+...+.+...    ..........++.++||+||||||||++|+++++.++.+++.+++++.... ..+...
T Consensus        31 ~~~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~~  110 (272)
T 1d2n_A           31 IMNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKC  110 (272)
T ss_dssp             CTTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHH
T ss_pred             HhcCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHHH
Confidence            345678887776666653    222222223347889999999999999999999999999999988653211 112223


Q ss_pred             HHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC-CCCeEEEEEcCCCCCCCc-cccC
Q psy450          280 ENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT-SQDVFILGATNRVDLLDP-AILR  357 (478)
Q Consensus       280 ~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~v~vI~ttn~~~~ld~-~l~~  357 (478)
                      ..++.+|..+....+++|+|||+|.+.+.+..+...   ...+++.|...+++... ..+++||+|||.++.+++ .+++
T Consensus       111 ~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~---~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~  187 (272)
T 1d2n_A          111 QAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRF---SNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLN  187 (272)
T ss_dssp             HHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBC---CHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhH---HHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhc
Confidence            567788888887788999999999997655322221   24566666667766543 346889999999988877 5666


Q ss_pred             CCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCC----CHHHHHHHHHHHH
Q psy450          358 PGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQM----SGADIYSICSNAW  419 (478)
Q Consensus       358 ~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~----sg~di~~l~~~a~  419 (478)
                        ||...+.+|.+..+++...++.   ....++ +..+..++..+ .||    +.+++.+++..|.
T Consensus       188 --rf~~~i~~p~l~~r~~i~~i~~---~~~~~~-~~~~~~l~~~~-~g~~~~g~ir~l~~~l~~a~  246 (272)
T 1d2n_A          188 --AFSTTIHVPNIATGEQLLEALE---LLGNFK-DKERTTIAQQV-KGKKVWIGIKKLLMLIEMSL  246 (272)
T ss_dssp             --TSSEEEECCCEEEHHHHHHHHH---HHTCSC-HHHHHHHHHHH-TTSEEEECHHHHHHHHHHHT
T ss_pred             --ccceEEcCCCccHHHHHHHHHH---hcCCCC-HHHHHHHHHHh-cCCCccccHHHHHHHHHHHh
Confidence              9999998875333344444443   333332 33477777776 566    4455555555443

>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=99.79  E-value=1.2e-18  Score=171.01  Aligned_cols=160  Identities=13%  Similarity=0.204  Sum_probs=130.0

Q ss_pred             HHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCC
Q psy450           18 HLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQ   87 (478)
Q Consensus        18 ~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~   87 (478)
                      .+.++|+++... .++.+|+ .|+..+|+||||||+|++++.|          .++.++..||++.           ...
T Consensus        86 ~l~~~~~g~~~~-~~~~~f~-~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~  152 (322)
T 3eie_A           86 DLVSKWMGESEK-LVKQLFA-MARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVG-----------NDS  152 (322)
T ss_dssp             HHHTTTGGGHHH-HHHHHHH-HHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGG-----------TSC
T ss_pred             HHhhcccchHHH-HHHHHHH-HHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhcccc-----------ccC
Confidence            345566665554 8999999 9999999999999999998754          5788888888642           234


Q ss_pred             CcEEEEe-------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHH
Q psy450           88 HKKKLVL-------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRL  160 (478)
Q Consensus        88 ~~v~via-------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~  160 (478)
                      .+|+|||       +|++++|||+..+++++|+.++|.+||+.++...  +...+...++.++..|+||+|+||..+|++
T Consensus       153 ~~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~--~~~~~~~~l~~la~~t~g~sg~di~~l~~~  230 (322)
T 3eie_A          153 QGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDT--PCVLTKEDYRTLGAMTEGYSGSDIAVVVKD  230 (322)
T ss_dssp             CCEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTC--CCCCCHHHHHHHHHTTTTCCHHHHHHHHHH
T ss_pred             CceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccC--CCCCCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            5688887       9999999999999999999999999999999876  333333334999999999999999999999


Q ss_pred             HHHHHHHhhc----------------------------------------CCCCCCCHHHHHHHHHHhhhhc
Q psy450          161 SVKNKMLKQG----------------------------------------INKRDLQKEDFQQIYDDLQSRY  192 (478)
Q Consensus       161 a~~~a~~~~~----------------------------------------~~~~~it~~d~~~a~~~~~~~~  192 (478)
                      |+..++++..                                        ....+|+.+||..|++.++|+.
T Consensus       231 a~~~a~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~it~~df~~al~~~~ps~  302 (322)
T 3eie_A          231 ALMQPIRKIQSATHFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTV  302 (322)
T ss_dssp             HTTHHHHHHHHCEEEEECC----CCCCEEECCSSCTTEEEEEGGGSCSSCBCCCCCCHHHHHHHHHHSCCSS
T ss_pred             HHHHHHHHHhhhhhhhhhccccccccccccccccccccccccccccccccccCCCCCHHHHHHHHHhcCCCC
Confidence            9998876410                                        0125699999999999888764

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.78  E-value=8e-19  Score=167.94  Aligned_cols=151  Identities=17%  Similarity=0.215  Sum_probs=121.0

Q ss_pred             chhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCCcEEEEe----
Q psy450           29 YHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----   94 (478)
Q Consensus        29 ~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----   94 (478)
                      ..+++.+|+ .++...|||+|+||+|.++..|          .+++++.+||+.            .....++++|    
T Consensus        89 ~~~i~~vf~-~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg------------~~~~~~i~ia~tn~  155 (274)
T 2x8a_A           89 ERAVRQVFQ-RAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGL------------EARQQVFIMAATNR  155 (274)
T ss_dssp             HHHHHHHHH-HHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTC------------CSTTCEEEEEEESC
T ss_pred             HHHHHHHHH-HHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcc------------cccCCEEEEeecCC
Confidence            457899999 8988899999999999998654          456677777743            4556677777    


Q ss_pred             ---eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhc-CCCCCCChhHHHHHHHhc--CCCCHHHHHHHHHHHHHHHH
Q psy450           95 ---IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCL-GGDYGFDASLVEYLSSVT--SGFERHDLTCLVRLSVKNKM  166 (478)
Q Consensus        95 ---ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~-~~~~~~~~~~i~~la~~t--~G~s~~di~~l~~~a~~~a~  166 (478)
                         +|||++|  |||+.|++++||.++|.+||+.+++.. ..++..++++ +.+|..|  +||||+||..+|++|+..++
T Consensus       156 p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~-~~la~~~~~~g~sgadl~~l~~~a~~~a~  234 (274)
T 2x8a_A          156 PDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNL-EAIAGDLRCDCYTGADLSALVREASICAL  234 (274)
T ss_dssp             GGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCH-HHHHTCSGGGSCCHHHHHHHHHHHHHHHH
T ss_pred             hhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCH-HHHHHhhccCCcCHHHHHHHHHHHHHHHH
Confidence               9999999  999999999999999999999998542 1244567787 9999875  59999999999999999987


Q ss_pred             Hhhc--------CCCCCCCHHHHHHHHHHhhhhcc
Q psy450          167 LKQG--------INKRDLQKEDFQQIYDDLQSRYS  193 (478)
Q Consensus       167 ~~~~--------~~~~~it~~d~~~a~~~~~~~~~  193 (478)
                      ++..        .+...|+++||..|+..++|+..
T Consensus       235 ~~~~~~~~~~~~~~~~~i~~~df~~al~~~~ps~~  269 (274)
T 2x8a_A          235 RQEMARQKSGNEKGELKVSHKHFEEAFKKVRSSIS  269 (274)
T ss_dssp             HHHC-----------CCBCHHHHHHHHTTCCCCC-
T ss_pred             HHHHhhccccccccCCeecHHHHHHHHHHhcCCCC
Confidence            6421        12457999999999999988654

>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=99.77  E-value=3e-18  Score=170.26  Aligned_cols=159  Identities=13%  Similarity=0.216  Sum_probs=125.2

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCC
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQH   88 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~   88 (478)
                      ++++|++... ..++.+|. .|+..+|+||||||+|++++.|          .++++|..||++.           ....
T Consensus       120 l~~~~~g~~~-~~~~~~f~-~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~  186 (355)
T 2qp9_X          120 LVSKWMGESE-KLVKQLFA-MARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVG-----------NDSQ  186 (355)
T ss_dssp             HHSCC---CH-HHHHHHHH-HHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC--------------C
T ss_pred             HhhhhcchHH-HHHHHHHH-HHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhccc-----------ccCC
Confidence            4455655554 48999999 9999999999999999999753          5788888888642           2245


Q ss_pred             cEEEEe-------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHH
Q psy450           89 KKKLVL-------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLS  161 (478)
Q Consensus        89 ~v~via-------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a  161 (478)
                      +|+|||       +|++++|||+..+++++|+.++|.+||+.++...+..+ .+.++ +.|+..|+||+|+||..+|++|
T Consensus       187 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~-~~~~l-~~la~~t~G~sg~dl~~l~~~A  264 (355)
T 2qp9_X          187 GVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVL-TKEDY-RTLGAMTEGYSGSDIAVVVKDA  264 (355)
T ss_dssp             CEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCC-CHHHH-HHHHHHTTTCCHHHHHHHHHHH
T ss_pred             CeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCC-CHHHH-HHHHHHcCCCCHHHHHHHHHHH
Confidence            688887       89999999999999999999999999999998763222 34455 9999999999999999999999


Q ss_pred             HHHHHHhhc----------------------------------------CCCCCCCHHHHHHHHHHhhhhc
Q psy450          162 VKNKMLKQG----------------------------------------INKRDLQKEDFQQIYDDLQSRY  192 (478)
Q Consensus       162 ~~~a~~~~~----------------------------------------~~~~~it~~d~~~a~~~~~~~~  192 (478)
                      +..++++..                                        ....+|+.+||..|+..++|+.
T Consensus       265 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~df~~Al~~~~ps~  335 (355)
T 2qp9_X          265 LMQPIRKIQSATHFKDVSTEDDETRKLTPSSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTV  335 (355)
T ss_dssp             HHHHHHHHHHCSEEEECCC-----CCEEEECTTSSSEEECCGGGSCGGGBCCCCBCHHHHHHHHHHSCCSS
T ss_pred             HHHHHHHHHHhhhhhhhccccccccccCcCCccccchhhcccccccccccccCCccHHHHHHHHHHcCCCC
Confidence            999876410                                        0124699999999999987763

>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=99.76  E-value=2.7e-19  Score=180.27  Aligned_cols=162  Identities=19%  Similarity=0.273  Sum_probs=78.0

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhC--------CCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh-hhhcc
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTS--------GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN-KYIGQ  277 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~--------~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~-~~~g~  277 (478)
                      ++++|++++|+.+...+..+..+.        ..+++++||+||||||||++|+++|+.++.+++.++++.+.+ .|.|.
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~~g~vG~   94 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcccceeec
Confidence            468999999999998887663221        123688999999999999999999999999999999999887 58885


Q ss_pred             -hHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEE-cCCCCCCCccc
Q psy450          278 -SEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGA-TNRVDLLDPAI  355 (478)
Q Consensus       278 -~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~t-tn~~~~ld~~l  355 (478)
                       .+..++.+|..+...    +++||++.+....     .....++++++|+..||++.....+  +++ ||+|+.+|++|
T Consensus        95 d~e~~lr~lf~~a~~~----~~~De~d~~~~~~-----~~~~e~rvl~~LL~~~dg~~~~~~v--~a~~TN~~~~ld~aL  163 (444)
T 1g41_A           95 EVDSIIRDLTDSAMKL----VRQQEIAKNRARA-----EDVAEERILDALLPPAKNQWGEVEN--HDSHSSTRQAFRKKL  163 (444)
T ss_dssp             CTHHHHHHHHHHHHHH----HHHHHHHSCC--------------------------------------------------
T ss_pred             cHHHHHHHHHHHHHhc----chhhhhhhhhccc-----hhhHHHHHHHHHHHHhhcccccccc--ccccccCHHHHHHHH
Confidence             788999999988765    3488888775332     2334478999999999998665554  454 99999999999


Q ss_pred             cCCCCCCeEEEeCCCCCHH-HHHHHH
Q psy450          356 LRPGRLDKSLYVGLYEDRI-SQLGVL  380 (478)
Q Consensus       356 ~~~~Rf~~~i~~~~pp~~~-~r~~il  380 (478)
                      +|+||||+.|++++| +.. .|.+|+
T Consensus       164 ~rggr~D~~i~i~lP-~~~~~~~ei~  188 (444)
T 1g41_A          164 REGQLDDKEIEIDVS-AGVSMGVEIM  188 (444)
T ss_dssp             --------------------------
T ss_pred             HcCCCcceEEEEcCC-CCccchhhhh
Confidence            999999999999995 554 577775

>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=99.76  E-value=3.9e-18  Score=165.72  Aligned_cols=156  Identities=17%  Similarity=0.263  Sum_probs=128.4

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhcc
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCK   85 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~   85 (478)
                      ++++|+++... .++.+|. .|+..+||||||||+|+++..+             .++++|..||++            .
T Consensus        85 l~~~~~g~~~~-~~~~~f~-~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~------------~  150 (301)
T 3cf0_A           85 LLTMWFGESEA-NVREIFD-KARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGM------------S  150 (301)
T ss_dssp             HHHHHHTTCTT-HHHHHHH-HHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSS------------C
T ss_pred             HHhhhcCchHH-HHHHHHH-HHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcc------------c
Confidence            34566666655 8999999 9999999999999999998654             468888888854            3


Q ss_pred             CCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHH
Q psy450           86 QQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTC  156 (478)
Q Consensus        86 ~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~  156 (478)
                      ...+|+||+       +|++++|  ||++.++|+.|+.++|.+||+.+++..  .+..++++ +.++..|+||+|+||++
T Consensus       151 ~~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~--~~~~~~~~-~~la~~~~g~sg~dl~~  227 (301)
T 3cf0_A          151 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS--PVAKDVDL-EFLAKMTNGFSGADLTE  227 (301)
T ss_dssp             TTSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS--CBCSSCCH-HHHHHTCSSCCHHHHHH
T ss_pred             CCCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccC--CCCccchH-HHHHHHcCCCCHHHHHH
Confidence            345688888       8999999  999999999999999999999999877  44566777 99999999999999999


Q ss_pred             HHHHHHHHHHHhhc----------------------CCCCCCCHHHHHHHHHHhhhh
Q psy450          157 LVRLSVKNKMLKQG----------------------INKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       157 l~~~a~~~a~~~~~----------------------~~~~~it~~d~~~a~~~~~~~  191 (478)
                      +|++|+..+..+..                      .....++.+||..|++..+|+
T Consensus       228 l~~~a~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~al~~~~~s  284 (301)
T 3cf0_A          228 ICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRS  284 (301)
T ss_dssp             HHHHHHHHHHHHHHHHHC--------------------CCCBCHHHHHHHHTTCCCS
T ss_pred             HHHHHHHHHHHHHHHhhhhhhhhcccccccccccccccCCccCHHHHHHHHHHcCCC
Confidence            99999998864310                      012578999999999988664

>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=99.76  E-value=2.2e-17  Score=161.92  Aligned_cols=212  Identities=17%  Similarity=0.224  Sum_probs=148.7

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHH
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEE  280 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~  280 (478)
                      +.+.+|++++|.+.+++.+...+...... +..+.+++|+||||||||++|+++++.++.+++.++++.+..      ..
T Consensus         6 ~~p~~~~~~ig~~~~~~~l~~~l~~~~~~-~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~------~~   78 (324)
T 1hqc_A            6 LRPKTLDEYIGQERLKQKLRVYLEAAKAR-KEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK------PG   78 (324)
T ss_dssp             CCCCSTTTCCSCHHHHHHHHHHHHHHHHH-CSCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCS------HH
T ss_pred             cCcccHHHhhCHHHHHHHHHHHHHHHHcc-CCCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCC------hH
Confidence            44568999999999999999888765432 223567999999999999999999999999999999876521      22


Q ss_pred             HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC----------------CCCCeEEEEE
Q psy450          281 NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH----------------TSQDVFILGA  344 (478)
Q Consensus       281 ~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~----------------~~~~v~vI~t  344 (478)
                      .+...+..+ ...+++|||||+|.+..             .....++..++...                ...++.+|++
T Consensus        79 ~l~~~l~~~-~~~~~~l~lDEi~~l~~-------------~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~  144 (324)
T 1hqc_A           79 DLAAILANS-LEEGDILFIDEIHRLSR-------------QAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGA  144 (324)
T ss_dssp             HHHHHHTTT-CCTTCEEEETTTTSCCH-------------HHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEE
T ss_pred             HHHHHHHHh-ccCCCEEEEECCccccc-------------chHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEe
Confidence            333333221 24567999999999862             23334444443211                1135789999


Q ss_pred             cCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Q psy450          345 TNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWTRAI  423 (478)
Q Consensus       345 tn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~~a~  423 (478)
                      ||.+..+++++.+  ||+..+.++. |+.+++..+++.++...+..-+ ..+..++..+ .| +.+++.++++.+...+.
T Consensus       145 t~~~~~~~~~l~~--R~~~~i~l~~-~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~-~G-~~r~l~~~l~~~~~~a~  219 (324)
T 1hqc_A          145 TTRPGLITAPLLS--RFGIVEHLEY-YTPEELAQGVMRDARLLGVRITEEAALEIGRRS-RG-TMRVAKRLFRRVRDFAQ  219 (324)
T ss_dssp             ESCCSSCSCSTTT--TCSCEEECCC-CCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHS-CS-CHHHHHHHHHHHTTTST
T ss_pred             CCCcccCCHHHHh--cccEEEecCC-CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHc-cC-CHHHHHHHHHHHHHHHH
Confidence            9999999999998  9988999986 6889999999988876554322 2266677775 44 45677777776653332


Q ss_pred             HHHHhcCCCCCCCCccccHHHHHhc
Q psy450          424 RRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       424 ~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      .          .....|+.+++..+
T Consensus       220 ~----------~~~~~i~~~~~~~~  234 (324)
T 1hqc_A          220 V----------AGEEVITRERALEA  234 (324)
T ss_dssp             T----------TSCSCCCHHHHHHH
T ss_pred             H----------hcCCCCCHHHHHHH
Confidence            1          11335777777666

>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=99.75  E-value=5.2e-18  Score=173.50  Aligned_cols=134  Identities=16%  Similarity=0.256  Sum_probs=107.6

Q ss_pred             HHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCCc
Q psy450           20 LTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQHK   89 (478)
Q Consensus        20 ~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~   89 (478)
                      ++.|.+.... .++.+|. .++..+|+||||||+|++++.|          .++++|..||++.           ....+
T Consensus       205 ~~~~~g~~~~-~~~~~f~-~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~-----------~~~~~  271 (444)
T 2zan_A          205 VSKWLGESEK-LVKNLFQ-LARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVG-----------VDNDG  271 (444)
T ss_dssp             -------CCC-THHHHHH-HHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSS-----------CCCSS
T ss_pred             HhhhcchHHH-HHHHHHH-HHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcc-----------cCCCC
Confidence            3455555544 8999999 9999999999999999997653          6788999999642           12456


Q ss_pred             EEEEe-------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy450           90 KKLVL-------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSV  162 (478)
Q Consensus        90 v~via-------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~  162 (478)
                      |+|||       +|++++|||++.+++++|+.++|.+||+.++...+..+ .+.++ +.|+..|+||+|+||..+|++|+
T Consensus       272 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l-~~~~l-~~la~~t~G~sgadl~~l~~~a~  349 (444)
T 2zan_A          272 ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSL-TEADF-QELGRKTDGYSGADISIIVRDAL  349 (444)
T ss_dssp             CEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEEC-CHHHH-HHHHHHTTTCCHHHHHHHHHHHH
T ss_pred             EEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCC-CHHHH-HHHHHHcCCCCHHHHHHHHHHHH
Confidence            88887       99999999999999999999999999999997763222 34555 99999999999999999999999


Q ss_pred             HHHHHh
Q psy450          163 KNKMLK  168 (478)
Q Consensus       163 ~~a~~~  168 (478)
                      ..++++
T Consensus       350 ~~a~r~  355 (444)
T 2zan_A          350 MQPVRK  355 (444)
T ss_dssp             THHHHH
T ss_pred             HHHHHH
Confidence            988764

>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=99.75  E-value=2.7e-17  Score=167.94  Aligned_cols=217  Identities=14%  Similarity=0.230  Sum_probs=143.8

Q ss_pred             CCCCCCCccccc-CcHH--HHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhh
Q psy450          199 PSVPNVSWEDIG-GLSK--LKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPEL  270 (478)
Q Consensus       199 ~~~~~~~~~~i~-g~~~--~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l  270 (478)
                      .-.|..+|++++ |...  ....+.....    .++. +.+++|+||||||||++|+++++.+     +.+++++++.++
T Consensus        97 ~l~~~~tfd~fv~g~~n~~a~~~~~~~a~----~~~~-~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~  171 (440)
T 2z4s_A           97 PLNPDYTFENFVVGPGNSFAYHAALEVAK----HPGR-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKF  171 (440)
T ss_dssp             CCCTTCSGGGCCCCTTTHHHHHHHHHHHH----STTS-SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHH
T ss_pred             CCCCCCChhhcCCCCchHHHHHHHHHHHh----CCCC-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHH
Confidence            345677899987 5333  3333333322    2232 6679999999999999999999988     888999999887


Q ss_pred             hhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC
Q psy450          271 LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL  350 (478)
Q Consensus       271 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~  350 (478)
                      ...+.+.........|.......+++|+|||++.+.++.           .....++..++.....+..+|++|.+.+..
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~vL~IDEi~~l~~~~-----------~~q~~l~~~l~~l~~~~~~iIitt~~~~~~  240 (440)
T 2z4s_A          172 LNDLVDSMKEGKLNEFREKYRKKVDILLIDDVQFLIGKT-----------GVQTELFHTFNELHDSGKQIVICSDREPQK  240 (440)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHTTTCSEEEEECGGGGSSCH-----------HHHHHHHHHHHHHHTTTCEEEEEESSCGGG
T ss_pred             HHHHHHHHHcccHHHHHHHhcCCCCEEEEeCcccccCCh-----------HHHHHHHHHHHHHHHCCCeEEEEECCCHHH
Confidence            655443322221223333333367899999999997431           122333333333223445566655555544


Q ss_pred             ---CCccccCCCCCC--eEEEeCCCCCHHHHHHHHHHHHhcC--CCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Q psy450          351 ---LDPAILRPGRLD--KSLYVGLYEDRISQLGVLKAVVRKF--KLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAI  423 (478)
Q Consensus       351 ---ld~~l~~~~Rf~--~~i~~~~pp~~~~r~~il~~~~~~~--~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~  423 (478)
                         +++.+++  ||.  ..+.++. |+.+++..|++..+...  .+++++ +..++..+  +-+.+++..++..+...|.
T Consensus       241 l~~l~~~L~s--R~~~g~~i~l~~-p~~e~r~~iL~~~~~~~~~~i~~e~-l~~la~~~--~gn~R~l~~~L~~~~~~a~  314 (440)
T 2z4s_A          241 LSEFQDRLVS--RFQMGLVAKLEP-PDEETRKSIARKMLEIEHGELPEEV-LNFVAENV--DDNLRRLRGAIIKLLVYKE  314 (440)
T ss_dssp             CSSCCHHHHH--HHHSSBCCBCCC-CCHHHHHHHHHHHHHHHTCCCCTTH-HHHHHHHC--CSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--hccCCeEEEeCC-CCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHhc--CCCHHHHHHHHHHHHHHHH
Confidence               7899998  886  5667765 79999999998887643  344443 77788776  3477899998888876654


Q ss_pred             HHHHhcCCCCCCCCccccHHHHHhc
Q psy450          424 RRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       424 ~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      ..           ...||.+++.++
T Consensus       315 ~~-----------~~~It~~~~~~~  328 (440)
T 2z4s_A          315 TT-----------GKEVDLKEAILL  328 (440)
T ss_dssp             HS-----------SSCCCHHHHHHH
T ss_pred             Hh-----------CCCCCHHHHHHH
Confidence            21           235899999988

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.74  E-value=1.3e-17  Score=167.43  Aligned_cols=219  Identities=18%  Similarity=0.153  Sum_probs=149.7

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---------CCcEEEEechhhhhh--
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---------RMNFLAVKGPELLNK--  273 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---------~~~~~~v~~~~l~~~--  273 (478)
                      ..++++|.++.++.+...+.....  +..+.+++|+||||||||++++++++.+         +.+++++++....+.  
T Consensus        17 ~p~~~~gr~~~~~~l~~~l~~~~~--~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   94 (387)
T 2v1u_A           17 VPDVLPHREAELRRLAEVLAPALR--GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYR   94 (387)
T ss_dssp             CCSCCTTCHHHHHHHHHTTGGGTS--SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHH
Confidence            348899999999999887755422  2236789999999999999999999988         788999997643211  


Q ss_pred             --------------hhcchHHH-HHHHHHHhHh-CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCC
Q psy450          274 --------------YIGQSEEN-IRNVFLKARS-AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQ  337 (478)
Q Consensus       274 --------------~~g~~~~~-~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  337 (478)
                                    ..|.+... ...++..... ..|++|+|||+|.+...+        .....+..++..++......
T Consensus        95 ~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~--------~~~~~l~~l~~~~~~~~~~~  166 (387)
T 2v1u_A           95 VASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRP--------GGQDLLYRITRINQELGDRV  166 (387)
T ss_dssp             HHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHST--------THHHHHHHHHHGGGCC----
T ss_pred             HHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccC--------CCChHHHhHhhchhhcCCCc
Confidence                          01222222 3444444433 347899999999997431        01456777777666432255


Q ss_pred             CeEEEEEcCCC---CCCCccccCCCCCCe-EEEeCCCCCHHHHHHHHHHHHhc----CCCCCCCCHHHHHHhcCCC--CC
Q psy450          338 DVFILGATNRV---DLLDPAILRPGRLDK-SLYVGLYEDRISQLGVLKAVVRK----FKLSDDVSLDSLVHHFPSQ--MS  407 (478)
Q Consensus       338 ~v~vI~ttn~~---~~ld~~l~~~~Rf~~-~i~~~~pp~~~~r~~il~~~~~~----~~~~~~~~~~~la~~~~~~--~s  407 (478)
                      ++.+|++||.+   +.+++.+.+  ||.. .+.++. ++.++...|++..+..    ..++.+ .+..++..+ ..  -.
T Consensus       167 ~~~~I~~t~~~~~~~~l~~~l~~--r~~~~~i~l~~-l~~~~~~~il~~~~~~~~~~~~~~~~-~~~~l~~~~-~~~~G~  241 (387)
T 2v1u_A          167 WVSLVGITNSLGFVENLEPRVKS--SLGEVELVFPP-YTAPQLRDILETRAEEAFNPGVLDPD-VVPLCAALA-AREHGD  241 (387)
T ss_dssp             -CEEEEECSCSTTSSSSCHHHHT--TTTSEECCBCC-CCHHHHHHHHHHHHHHHBCTTTBCSS-HHHHHHHHH-HSSSCC
T ss_pred             eEEEEEEECCCchHhhhCHHHHh--cCCCeEEeeCC-CCHHHHHHHHHHHHHhhccCCCCCHH-HHHHHHHHH-HHhccC
Confidence            78899999988   678899998  9986 777874 7899999999888764    223332 255666655 31  24


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          408 GADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       408 g~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      .+.+.++|+.|+..|..+          ....||.+|+.+|
T Consensus       242 ~r~~~~~l~~a~~~a~~~----------~~~~i~~~~v~~a  272 (387)
T 2v1u_A          242 ARRALDLLRVAGEIAERR----------REERVRREHVYSA  272 (387)
T ss_dssp             HHHHHHHHHHHHHHHHHT----------TCSCBCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHc----------CCCCcCHHHHHHH
Confidence            556778888887655432          2457999999999

>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=99.72  E-value=2.4e-17  Score=168.33  Aligned_cols=145  Identities=18%  Similarity=0.205  Sum_probs=123.5

Q ss_pred             cchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhccCCCcEEEEe
Q psy450           28 RYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL   94 (478)
Q Consensus        28 ~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via   94 (478)
                      ...+++.+|. .|+..+||||||||+|++++.|             .++++|.+||++            ....+|+||+
T Consensus        93 ~~~~~r~lf~-~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~------------~~~~~viVIa  159 (476)
T 2ce7_A           93 GAARVRDLFA-QAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGF------------DSKEGIIVMA  159 (476)
T ss_dssp             HHHHHHHHHH-HHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHS------------CGGGTEEEEE
T ss_pred             cHHHHHHHHH-HHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhcc------------CCCCCEEEEE
Confidence            4458899999 9999999999999999998754             578888888854            3345688888


Q ss_pred             -------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHH
Q psy450           95 -------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNK  165 (478)
Q Consensus        95 -------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a  165 (478)
                             +||+++|  ||++.|.|+.|+.++|.+||+.+++..  ++..++++ ..++..|+||+|+||.++|++|+..+
T Consensus       160 aTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~--~l~~~v~l-~~la~~t~G~sgadL~~lv~~Aal~A  236 (476)
T 2ce7_A          160 ATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNK--PLAEDVNL-EIIAKRTPGFVGADLENLVNEAALLA  236 (476)
T ss_dssp             EESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS--CBCTTCCH-HHHHHTCTTCCHHHHHHHHHHHHHHH
T ss_pred             ecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhC--CCcchhhH-HHHHHhcCCCcHHHHHHHHHHHHHHH
Confidence                   9999999  999999999999999999999999877  55666777 88999999999999999999999988


Q ss_pred             HHhhcCCCCCCCHHHHHHHHHHhhhh
Q psy450          166 MLKQGINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       166 ~~~~~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      .++   +...|+.+||..++..+.+.
T Consensus       237 ~~~---~~~~I~~~dl~~al~~v~~~  259 (476)
T 2ce7_A          237 ARE---GRDKITMKDFEEAIDRVIAG  259 (476)
T ss_dssp             HHT---TCSSBCHHHHHHHHHHHC--
T ss_pred             HHc---CCCeecHHHHHHHHHHHhcC
Confidence            754   45689999999999988643

>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=99.72  E-value=9.4e-17  Score=157.64  Aligned_cols=198  Identities=14%  Similarity=0.229  Sum_probs=129.3

Q ss_pred             CCCCCccccc-C--cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh
Q psy450          201 VPNVSWEDIG-G--LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY  274 (478)
Q Consensus       201 ~~~~~~~~i~-g--~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~  274 (478)
                      .|..+|++++ |  .......+...+..+    +..+.+++|+||||||||++++++++.+   +.+++++++.++...+
T Consensus         5 ~~~~~f~~fv~g~~~~~a~~~~~~~~~~~----~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~~~~~   80 (324)
T 1l8q_A            5 NPKYTLENFIVGEGNRLAYEVVKEALENL----GSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAM   80 (324)
T ss_dssp             CTTCCSSSCCCCTTTHHHHHHHHHHHHTT----TTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHH
T ss_pred             CCCCCcccCCCCCcHHHHHHHHHHHHhCc----CCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHH
Confidence            4667899987 4  344444444444332    2236679999999999999999999998   8999999998876655


Q ss_pred             hcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC---CC
Q psy450          275 IGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD---LL  351 (478)
Q Consensus       275 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~---~l  351 (478)
                      .+.........|.... ..+++|||||++.+.+++           .....++..++.....+..+|+++++.|.   .+
T Consensus        81 ~~~~~~~~~~~~~~~~-~~~~vL~iDEi~~l~~~~-----------~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l  148 (324)
T 1l8q_A           81 VEHLKKGTINEFRNMY-KSVDLLLLDDVQFLSGKE-----------RTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGV  148 (324)
T ss_dssp             HHHHHHTCHHHHHHHH-HTCSEEEEECGGGGTTCH-----------HHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTS
T ss_pred             HHHHHcCcHHHHHHHh-cCCCEEEEcCcccccCCh-----------HHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHh
Confidence            4433322222333322 236799999999987421           12223333333222334567777777665   58


Q ss_pred             CccccCCCCCC--eEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy450          352 DPAILRPGRLD--KSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWTR  421 (478)
Q Consensus       352 d~~l~~~~Rf~--~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~~  421 (478)
                      ++++++  ||.  ..+.++ | +.+++..|++..+...++.-+ ..+..++..+   -+.+++.+++..+...
T Consensus       149 ~~~L~s--R~~~~~~i~l~-~-~~~e~~~il~~~~~~~~~~l~~~~l~~l~~~~---g~~r~l~~~l~~~~~~  214 (324)
T 1l8q_A          149 SDRLVS--RFEGGILVEIE-L-DNKTRFKIIKEKLKEFNLELRKEVIDYLLENT---KNVREIEGKIKLIKLK  214 (324)
T ss_dssp             CHHHHH--HHHTSEEEECC-C-CHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC---SSHHHHHHHHHHHHHH
T ss_pred             hhHhhh--cccCceEEEeC-C-CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhC---CCHHHHHHHHHHHHHc
Confidence            899998  886  445554 4 899999999998875544322 2266667664   3567787877776654

>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=99.72  E-value=3.5e-17  Score=164.15  Aligned_cols=233  Identities=18%  Similarity=0.264  Sum_probs=146.8

Q ss_pred             cccCcHHHHHHHHHHHHhhhh------------------------hCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          208 DIGGLSKLKAEILSTFRGVNR------------------------TSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~------------------------~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      .++|++.+|+.|...+.....                        .....+.++||+||||||||++|+++|+.++.+++
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~  101 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIA  101 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEE
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            579999999999887732211                        11123668999999999999999999999999999


Q ss_pred             EEechhhh-hhhhcch-HHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCch-hHHHHHHHHHHhhcCCC--
Q psy450          264 AVKGPELL-NKYIGQS-EENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSG-VMDRVVSQLLAEMDGVH--  334 (478)
Q Consensus       264 ~v~~~~l~-~~~~g~~-~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~-~~~~~~~~ll~~l~~~~--  334 (478)
                      .+++..+. ..+.|.. ...+...+..+.    ...++||||||+|.+...+++...... ....+.+.|+..+++..  
T Consensus       102 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~  181 (376)
T 1um8_A          102 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVN  181 (376)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC
T ss_pred             EecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhhcccee
Confidence            99998765 3344543 444555555432    235689999999999876432111111 11236777888777531  


Q ss_pred             -----------------CCCCeEEEEEcCCC-----------------------------------------CCCCcccc
Q psy450          335 -----------------TSQDVFILGATNRV-----------------------------------------DLLDPAIL  356 (478)
Q Consensus       335 -----------------~~~~v~vI~ttn~~-----------------------------------------~~ld~~l~  356 (478)
                                       ...++++|+++|..                                         ..+.+.+.
T Consensus       182 ~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~p~l~  261 (376)
T 1um8_A          182 IPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELI  261 (376)
T ss_dssp             ---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHH
T ss_pred             cccccccccCCcceEEEecCCeEEEecCCHHHHHHHHHHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcCCChHHh
Confidence                             12456778877620                                         12456777


Q ss_pred             CCCCCCeEEEeCCCCCHHHHHHHHHH----HHh-----------cCCCCCCCCHHHHHHhc-CCCCCHHHHHHHHHHHHH
Q psy450          357 RPGRLDKSLYVGLYEDRISQLGVLKA----VVR-----------KFKLSDDVSLDSLVHHF-PSQMSGADIYSICSNAWT  420 (478)
Q Consensus       357 ~~~Rf~~~i~~~~pp~~~~r~~il~~----~~~-----------~~~~~~~~~~~~la~~~-~~~~sg~di~~l~~~a~~  420 (478)
                      +  ||+..+.++. .+.++...|+..    +++           .+.++.+ -+..++.+. +.....+++.+++..++.
T Consensus       262 ~--R~~~~i~~~~-l~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~-a~~~l~~~~~~~~~~~R~L~~~le~~~~  337 (376)
T 1um8_A          262 G--RLPVLSTLDS-ISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEE-AIKEIAQLALERKTGARGLRAIIEDFCL  337 (376)
T ss_dssp             T--TCCEEEECCC-CCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHH-HHHHHHHHHHHTTCTGGGHHHHHHHHHH
T ss_pred             c--CCCceeeccC-CCHHHHHHHHhhhHHHHHHHHHHHHhhcCceEEECHH-HHHHHHHHhcccccCcHHHHHHHHHHHH
Confidence            7  9988888875 788888888862    211           1112222 256666653 223567899999999988


Q ss_pred             HHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          421 RAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       421 ~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      .++.+.....    .....||.+++.++
T Consensus       338 ~~~~~~~~~~----~~~~~i~~~~v~~~  361 (376)
T 1um8_A          338 DIMFDLPKLK----GSEVRITKDCVLKQ  361 (376)
T ss_dssp             HHHHTGGGGT----TSEEEECHHHHTTS
T ss_pred             HHHhhccCCC----CCEEEEeHHHhcCC
Confidence            8887764321    23456999999988

>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=99.72  E-value=9.6e-17  Score=159.08  Aligned_cols=216  Identities=19%  Similarity=0.202  Sum_probs=132.6

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC-------c-----------
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM-------N-----------  261 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~-------~-----------  261 (478)
                      ..+..+|++++|++.+++.+........      ..++||+||||||||++|+++++.++.       +           
T Consensus        17 ~~~~~~f~~i~G~~~~~~~l~~~~~~~~------~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~   90 (350)
T 1g8p_A           17 TRPVFPFSAIVGQEDMKLALLLTAVDPG------IGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPD   90 (350)
T ss_dssp             -CCCCCGGGSCSCHHHHHHHHHHHHCGG------GCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCT
T ss_pred             CCCCCCchhccChHHHHHHHHHHhhCCC------CceEEEECCCCccHHHHHHHHHHhCccccccccccccccccccccc
Confidence            3467789999999998776543332211      446999999999999999999998863       1           


Q ss_pred             ---------------EEEEechhhhhhhhcchHHHHHHHHHHh---------HhCCCeEEEEcCCccccCCCCCCCCCch
Q psy450          262 ---------------FLAVKGPELLNKYIGQSEENIRNVFLKA---------RSAAPCVVFFDELDSLAPRRGQEDQSSG  317 (478)
Q Consensus       262 ---------------~~~v~~~~l~~~~~g~~~~~~~~~~~~a---------~~~~p~il~iDeid~l~~~~~~~~~~~~  317 (478)
                                     ++.+..........|...  +...+...         ....+++|||||+|.+.+          
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~~--~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~~----------  158 (350)
T 1g8p_A           91 WATVLSTNVIRKPTPVVDLPLGVSEDRVVGALD--IERAISKGEKAFEPGLLARANRGYLYIDECNLLED----------  158 (350)
T ss_dssp             TCCCSCCCEEEECCCEEEECTTCCHHHHHCEEC--HHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCH----------
T ss_pred             hhhhhccccccCCCcccccCCCcchhhheeech--hhhhhcCCceeecCceeeecCCCEEEEeChhhCCH----------
Confidence                           221111100111111100  01112111         112357999999999863          


Q ss_pred             hHHHHHHHHHHhhcCC----CC-------CCCeEEEEEcCCCC-CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH-
Q psy450          318 VMDRVVSQLLAEMDGV----HT-------SQDVFILGATNRVD-LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV-  384 (478)
Q Consensus       318 ~~~~~~~~ll~~l~~~----~~-------~~~v~vI~ttn~~~-~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~-  384 (478)
                         ...+.|+..++.-    ..       ..++++|+|||... .+++++++  ||+..+.++.|++.+++.+|++..+ 
T Consensus       159 ---~~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~--R~~~~~~l~~~~~~~~~~~il~~~~~  233 (350)
T 1g8p_A          159 ---HIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVETRVEVIRRRDT  233 (350)
T ss_dssp             ---HHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCCCCCCHHHHh--hcceEEEcCCCCcHHHHHHHHHHHHh
Confidence               3445555554421    11       13688999999744 79999999  9998899998668888878886521 


Q ss_pred             ------------------------------hcCCCCCCCCHHHHHHhcCC-CC-CHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy450          385 ------------------------------RKFKLSDDVSLDSLVHHFPS-QM-SGADIYSICSNAWTRAIRRIITSAPQ  432 (478)
Q Consensus       385 ------------------------------~~~~~~~~~~~~~la~~~~~-~~-sg~di~~l~~~a~~~a~~r~~~~~~~  432 (478)
                                                    +...+++++ +..++..... +. +.+.+.++++.|...|..+.      
T Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ls~~~-~~~l~~~~~~~~~~~~R~~~~ll~~a~~~A~~~~------  306 (350)
T 1g8p_A          234 YDADPKAFLEEWRPKDMDIRNQILEARERLPKVEAPNTA-LYDCAALCIALGSDGLRGELTLLRSARALAALEG------  306 (350)
T ss_dssp             HHHCHHHHHHHHHHHHHHHHHHHHHHHHHGGGCBCCHHH-HHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTT------
T ss_pred             cccCchhhccccccchHHHHHHHHHHHHhCCCCCCCHHH-HHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcC------
Confidence                                          112233222 3444443311 22 56778888887776665432      


Q ss_pred             CCCCCccccHHHHHhch
Q psy450          433 VKSAPVIVTMDDFLGAC  449 (478)
Q Consensus       433 ~~~~~~~it~~d~~~A~  449 (478)
                          ...|+.+|+.+|+
T Consensus       307 ----~~~v~~~~v~~a~  319 (350)
T 1g8p_A          307 ----ATAVGRDHLKRVA  319 (350)
T ss_dssp             ----CSBCCHHHHHHHH
T ss_pred             ----CCcCCHHHHHHHH
Confidence                3469999999983

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.71  E-value=2e-17  Score=160.07  Aligned_cols=160  Identities=7%  Similarity=0.075  Sum_probs=118.3

Q ss_pred             ccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhhh------
Q psy450          209 IGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELLN------  272 (478)
Q Consensus       209 i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~~------  272 (478)
                      +.|.++..+.+...+......  ..+.+++|+||||||||++++.+++++          +..+++++|..+.+      
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~--~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~   99 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMS--SQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYE   99 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHT--TCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcC--CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHH
Confidence            556677777777666655432  347889999999999999999999998          35688999865432      


Q ss_pred             ----hhh------cchHHHHHHHHHHh--HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeE
Q psy450          273 ----KYI------GQSEENIRNVFLKA--RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVF  340 (478)
Q Consensus       273 ----~~~------g~~~~~~~~~~~~a--~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~  340 (478)
                          ...      +.....+...|...  ....++|++|||+|.+. .           +.+++.++.+..  ....+++
T Consensus       100 ~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~-~-----------q~~L~~l~~~~~--~~~s~~~  165 (318)
T 3te6_A          100 KIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL-S-----------EKILQYFEKWIS--SKNSKLS  165 (318)
T ss_dssp             HHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC-C-----------THHHHHHHHHHH--CSSCCEE
T ss_pred             HHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh-c-----------chHHHHHHhccc--ccCCcEE
Confidence                221      33566778888775  35567899999999997 1           356777776543  2456799


Q ss_pred             EEEEcCCCCC----CCccccCCCCCC-eEEEeCCCCCHHHHHHHHHHHHhcC
Q psy450          341 ILGATNRVDL----LDPAILRPGRLD-KSLYVGLYEDRISQLGVLKAVVRKF  387 (478)
Q Consensus       341 vI~ttn~~~~----ld~~l~~~~Rf~-~~i~~~~pp~~~~r~~il~~~~~~~  387 (478)
                      ||+++|..+.    +++++++  ||. ..+.|+. ++.++..+|++..++..
T Consensus       166 vI~i~n~~d~~~~~L~~~v~S--R~~~~~i~F~p-Yt~~el~~Il~~Rl~~~  214 (318)
T 3te6_A          166 IICVGGHNVTIREQINIMPSL--KAHFTEIKLNK-VDKNELQQMIITRLKSL  214 (318)
T ss_dssp             EEEECCSSCCCHHHHHTCHHH--HTTEEEEECCC-CCHHHHHHHHHHHHHHH
T ss_pred             EEEEecCcccchhhcchhhhc--cCCceEEEeCC-CCHHHHHHHHHHHHHhh
Confidence            9999999875    3445566  887 5788875 79999999999888764

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.71  E-value=4.8e-17  Score=165.84  Aligned_cols=203  Identities=17%  Similarity=0.212  Sum_probs=136.8

Q ss_pred             CCCCcccccCcHHHH---HHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcch
Q psy450          202 PNVSWEDIGGLSKLK---AEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQS  278 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k---~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~  278 (478)
                      .+.+|++++|+++++   ..|...+....      ..++||+||||||||++|+++++.++.+++.+++...       .
T Consensus        21 rP~~l~~ivGq~~~~~~~~~L~~~i~~~~------~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~~-------~   87 (447)
T 3pvs_A           21 RPENLAQYIGQQHLLAAGKPLPRAIEAGH------LHSMILWGPPGTGKTTLAEVIARYANADVERISAVTS-------G   87 (447)
T ss_dssp             CCCSTTTCCSCHHHHSTTSHHHHHHHHTC------CCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTTC-------C
T ss_pred             CCCCHHHhCCcHHHHhchHHHHHHHHcCC------CcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEeccC-------C
Confidence            456799999999998   56666554321      3579999999999999999999999999999986432       3


Q ss_pred             HHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEc--CCCCCCC
Q psy450          279 EENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGAT--NRVDLLD  352 (478)
Q Consensus       279 ~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~tt--n~~~~ld  352 (478)
                      ...++.++..+.    ...++||||||+|.+...             ..+.|+..++.    ..+++|++|  |....++
T Consensus        88 ~~~ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~~-------------~q~~LL~~le~----~~v~lI~att~n~~~~l~  150 (447)
T 3pvs_A           88 VKEIREAIERARQNRNAGRRTILFVDEVHRFNKS-------------QQDAFLPHIED----GTITFIGATTENPSFELN  150 (447)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCEEEEEETTTCC-------------------CCHHHHHT----TSCEEEEEESSCGGGSSC
T ss_pred             HHHHHHHHHHHHHhhhcCCCcEEEEeChhhhCHH-------------HHHHHHHHHhc----CceEEEecCCCCcccccC
Confidence            334555555543    346789999999999632             23445666653    346666665  3335789


Q ss_pred             ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCC-------CC-CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Q psy450          353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFK-------LS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR  424 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~-------~~-~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~  424 (478)
                      +++++  |+. .+.++. ++.+++..+++..+....       +. .+..+..++..+ .| +.+++.+++..++..+..
T Consensus       151 ~aL~s--R~~-v~~l~~-l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~-~G-d~R~lln~Le~a~~~a~~  224 (447)
T 3pvs_A          151 SALLS--RAR-VYLLKS-LSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELV-NG-DARRALNTLEMMADMAEV  224 (447)
T ss_dssp             HHHHT--TEE-EEECCC-CCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHH-CS-CHHHHHHHHHHHHHHSCB
T ss_pred             HHHhC--cee-EEeeCC-cCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHC-CC-CHHHHHHHHHHHHHhccc
Confidence            99999  886 566765 689999999998887522       11 112266677765 33 555666666666543211


Q ss_pred             HHHhcCCCCCCCCccccHHHHHhc
Q psy450          425 RIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       425 r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      .        ......||.+|+.++
T Consensus       225 ~--------~~~~~~It~e~v~~~  240 (447)
T 3pvs_A          225 D--------DSGKRVLKPELLTEI  240 (447)
T ss_dssp             C--------TTSCEECCHHHHHHH
T ss_pred             c--------cCCCCccCHHHHHHH
Confidence            0        012357999999999

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.71  E-value=4.4e-17  Score=158.88  Aligned_cols=207  Identities=17%  Similarity=0.241  Sum_probs=142.0

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhh---CCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-----hh
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRT---SGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-----YI  275 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~---~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-----~~  275 (478)
                      ++++|++.+++.+...+......   +..+..+++|+||||||||++|+++++.+   +.+++.++++.+...     ..
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~l~   96 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLI   96 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHHHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccHHHhc
Confidence            45789999999999888776432   22224579999999999999999999988   557999998765321     11


Q ss_pred             cchHH----H-HHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCeEE
Q psy450          276 GQSEE----N-IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDVFI  341 (478)
Q Consensus       276 g~~~~----~-~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~v  341 (478)
                      |....    . ...+........+++|||||+|.+.             ..+.+.|+..++...         ...++++
T Consensus        97 g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~-------------~~~~~~Ll~~le~~~~~~~~~~~~~~~~~ii  163 (311)
T 4fcw_A           97 GAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAH-------------PDVFNILLQMLDDGRLTDSHGRTVDFRNTVI  163 (311)
T ss_dssp             CCCTTSTTTTTCCHHHHHHHHCSSEEEEEETGGGSC-------------HHHHHHHHHHHHHSEEECTTSCEEECTTEEE
T ss_pred             CCCCccccccccchHHHHHHhCCCeEEEEeChhhcC-------------HHHHHHHHHHHhcCEEEcCCCCEEECCCcEE
Confidence            11000    0 0112223334455899999999986             345666766665322         1136789


Q ss_pred             EEEcCC--------------------------CCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcC-------C
Q psy450          342 LGATNR--------------------------VDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKF-------K  388 (478)
Q Consensus       342 I~ttn~--------------------------~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~-------~  388 (478)
                      |+|||.                          ...+++++++  ||+..+.+++ |+.+++..|++.+++..       .
T Consensus       164 I~ttn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~--R~~~~~~~~p-~~~~~~~~i~~~~l~~~~~~~~~~~  240 (311)
T 4fcw_A          164 IMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRP-LTKEQIRQIVEIQMSYLRARLAEKR  240 (311)
T ss_dssp             EEEESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHT--TCSEEEECCC-CCHHHHHHHHHHHTHHHHHHHHTTT
T ss_pred             EEecccCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHh--cCCeEEEeCC-CCHHHHHHHHHHHHHHHHHHHHhCC
Confidence            999998                          4467888888  9999888875 78999999998876542       1


Q ss_pred             CCC---CCCHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy450          389 LSD---DVSLDSLVHHFP-SQMSGADIYSICSNAWTRAIRRIITS  429 (478)
Q Consensus       389 ~~~---~~~~~~la~~~~-~~~sg~di~~l~~~a~~~a~~r~~~~  429 (478)
                      ...   +..+..++.+.. ...+.++++++++.+...+..+.+..
T Consensus       241 ~~~~~~~~~~~~l~~~~~~~~gn~R~L~~~i~~~~~~~~~~~i~~  285 (311)
T 4fcw_A          241 ISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILA  285 (311)
T ss_dssp             CEEEECHHHHHHHHHHSCBTTTBTTTHHHHHHHHTHHHHHHHHHH
T ss_pred             cEEEeCHHHHHHHHHhCCCccCCchhHHHHHHHHHHHHHHHHHHh
Confidence            111   112555666431 14677899999999999888877544

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.70  E-value=8.6e-16  Score=141.39  Aligned_cols=200  Identities=19%  Similarity=0.187  Sum_probs=137.5

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELLNKYI  275 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~~~~~  275 (478)
                      .++..|++++|.+..++.+...+...      .+.+++|+||||||||++++.+++.+     ...++.+++.....   
T Consensus        11 ~~p~~~~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~---   81 (226)
T 2chg_A           11 YRPRTLDEVVGQDEVIQRLKGYVERK------NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERG---   81 (226)
T ss_dssp             TSCSSGGGCCSCHHHHHHHHHHHHTT------CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTC---
T ss_pred             cCCCCHHHHcCcHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccC---
Confidence            45667899999999999988877542      13459999999999999999999876     45677887754321   


Q ss_pred             cchHHHHHHHHHHhH------hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          276 GQSEENIRNVFLKAR------SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       276 g~~~~~~~~~~~~a~------~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                         ...+...+....      ...+.+|+|||+|.+.+             .....++..++.  ...++.+|++||.+.
T Consensus        82 ---~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-------------~~~~~l~~~l~~--~~~~~~~i~~~~~~~  143 (226)
T 2chg_A           82 ---IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTA-------------DAQAALRRTMEM--YSKSCRFILSCNYVS  143 (226)
T ss_dssp             ---HHHHHHHHHHHHTSCCSTTCSCEEEEEETGGGSCH-------------HHHHHHHHHHHH--TTTTEEEEEEESCGG
T ss_pred             ---hHHHHHHHHHHhcccCCCccCceEEEEeChhhcCH-------------HHHHHHHHHHHh--cCCCCeEEEEeCChh
Confidence               122222222221      25678999999999863             234455555553  245678889999999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHh
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIIT  428 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~  428 (478)
                      .+++.+.+  ||. .+.++. ++.++...+++..+...+...+ ..+..++..+ .| +.+.+.++++.++..+      
T Consensus       144 ~~~~~l~~--r~~-~i~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~-~g-~~r~l~~~l~~~~~~~------  211 (226)
T 2chg_A          144 RIIEPIQS--RCA-VFRFKP-VPKEAMKKRLLEICEKEGVKITEDGLEALIYIS-GG-DFRKAINALQGAAAIG------  211 (226)
T ss_dssp             GSCHHHHT--TSE-EEECCC-CCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHH-TT-CHHHHHHHHHHHHHTC------
T ss_pred             hcCHHHHH--hCc-eeecCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CC-CHHHHHHHHHHHHhcC------
Confidence            99999998  987 778875 6888999999888765443322 2355666655 33 4445555555444221      


Q ss_pred             cCCCCCCCCccccHHHHHhc
Q psy450          429 SAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       429 ~~~~~~~~~~~it~~d~~~A  448 (478)
                               ..||.+|+.++
T Consensus       212 ---------~~I~~~~v~~~  222 (226)
T 2chg_A          212 ---------EVVDADTIYQI  222 (226)
T ss_dssp             ---------SCBCHHHHHHH
T ss_pred             ---------ceecHHHHHHH
Confidence                     36999999988

>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=99.68  E-value=2.8e-16  Score=157.76  Aligned_cols=207  Identities=20%  Similarity=0.223  Sum_probs=142.6

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----------CCcEEEEechhhh-hh-
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----------RMNFLAVKGPELL-NK-  273 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----------~~~~~~v~~~~l~-~~-  273 (478)
                      ++++|.++.++.+...+......  ..+.+++|+||||||||++++++++.+           +.+++++++.... +. 
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~--~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   97 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKN--EVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQ   97 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTT--CCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcC--CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHH
Confidence            78999999999999888765432  336689999999999999999999987           8999999976543 11 


Q ss_pred             ---------h-------hcch-HHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHH-HHHHHHhhcCCCC
Q psy450          274 ---------Y-------IGQS-EENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRV-VSQLLAEMDGVHT  335 (478)
Q Consensus       274 ---------~-------~g~~-~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~-~~~ll~~l~~~~~  335 (478)
                               .       .+.+ ...+..++..+.... .+|+|||+|.+.....         ... +..++...     
T Consensus        98 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~-~vlilDEi~~l~~~~~---------~~~~l~~l~~~~-----  162 (384)
T 2qby_B           98 AVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIR-AIIYLDEVDTLVKRRG---------GDIVLYQLLRSD-----  162 (384)
T ss_dssp             HHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSC-EEEEEETTHHHHHSTT---------SHHHHHHHHTSS-----
T ss_pred             HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCC-CEEEEECHHHhccCCC---------CceeHHHHhcCC-----
Confidence                     1       1111 223444444444443 4999999999974321         123 44444332     


Q ss_pred             CCCeEEEEEcCCC---CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc----CCCCCCCCHHHHHHhcCCCC--
Q psy450          336 SQDVFILGATNRV---DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK----FKLSDDVSLDSLVHHFPSQM--  406 (478)
Q Consensus       336 ~~~v~vI~ttn~~---~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~----~~~~~~~~~~~la~~~~~~~--  406 (478)
                       .++.+|++||.+   +.+++.+++  ||...+.++. ++.++...|++..++.    ..++++ .+..++..+ .+.  
T Consensus       163 -~~~~iI~~t~~~~~~~~l~~~l~s--r~~~~i~l~~-l~~~~~~~il~~~~~~~~~~~~~~~~-~~~~i~~~~-~~~~G  236 (384)
T 2qby_B          163 -ANISVIMISNDINVRDYMEPRVLS--SLGPSVIFKP-YDAEQLKFILSKYAEYGLIKGTYDDE-ILSYIAAIS-AKEHG  236 (384)
T ss_dssp             -SCEEEEEECSSTTTTTTSCHHHHH--TCCCEEEECC-CCHHHHHHHHHHHHHHTSCTTSCCSH-HHHHHHHHH-HTTCC
T ss_pred             -cceEEEEEECCCchHhhhCHHHHh--cCCCeEEECC-CCHHHHHHHHHHHHHhhcccCCcCHH-HHHHHHHHH-HhccC
Confidence             678899999987   678899988  9888999985 7999999999988763    222222 255666655 322  


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          407 SGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       407 sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      +.+.+.++|+.|+..|.            ....||.+|+..|
T Consensus       237 ~~r~a~~~l~~a~~~a~------------~~~~i~~~~v~~~  266 (384)
T 2qby_B          237 DARKAVNLLFRAAQLAS------------GGGIIRKEHVDKA  266 (384)
T ss_dssp             CHHHHHHHHHHHHHHTT------------SSSCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhc------------CCCccCHHHHHHH
Confidence            23445566666654443            1346999999998

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.67  E-value=1.2e-16  Score=143.60  Aligned_cols=159  Identities=20%  Similarity=0.321  Sum_probs=113.5

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhh-
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELL-  271 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~-  271 (478)
                      ...|++++|.++..+.+.+.+..      ..+.+++|+||||||||++++++++.+          +.+++.+++..+. 
T Consensus        18 ~~~~~~~~g~~~~~~~l~~~l~~------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (195)
T 1jbk_A           18 QGKLDPVIGRDEEIRRTIQVLQR------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVA   91 (195)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTS------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHT
T ss_pred             hccccccccchHHHHHHHHHHhc------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhc
Confidence            34688999999988888776543      126679999999999999999999986          7889999988776 


Q ss_pred             -hhhhcchHHHHHHHHHHhH-hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          272 -NKYIGQSEENIRNVFLKAR-SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       272 -~~~~g~~~~~~~~~~~~a~-~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                       ..+.+.....+..++..+. ...++||+|||+|.+.+.......  ......+..+   ++    ..++.+|++||.+.
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~--~~~~~~l~~~---~~----~~~~~~i~~~~~~~  162 (195)
T 1jbk_A           92 GAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGA--MDAGNMLKPA---LA----RGELHCVGATTLDE  162 (195)
T ss_dssp             TTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------C--CCCHHHHHHH---HH----TTSCCEEEEECHHH
T ss_pred             cCCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccch--HHHHHHHHHh---hc----cCCeEEEEeCCHHH
Confidence             3345556667777777654 355789999999999754321111  1112223332   22    34577888888875


Q ss_pred             -----CCCccccCCCCCCeEEEeCCCCCHHHHHHHH
Q psy450          350 -----LLDPAILRPGRLDKSLYVGLYEDRISQLGVL  380 (478)
Q Consensus       350 -----~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il  380 (478)
                           .+++++++  ||. .+.++. |+.+++.+|+
T Consensus       163 ~~~~~~~~~~l~~--r~~-~i~~~~-p~~~~~~~il  194 (195)
T 1jbk_A          163 YRQYIEKDAALER--RFQ-KVFVAE-PSVEDTIAIL  194 (195)
T ss_dssp             HHHHTTTCHHHHT--TEE-EEECCC-CCHHHHHTTC
T ss_pred             HHHHHhcCHHHHH--Hhc-eeecCC-CCHHHHHHHh
Confidence                 68999999  998 688886 6888887665

>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=99.67  E-value=7.8e-16  Score=151.01  Aligned_cols=153  Identities=20%  Similarity=0.210  Sum_probs=113.8

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHH
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEE  280 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~  280 (478)
                      +.+.+|++++|++++++.+...+.     .+..++.+|++||||||||++++++++.++.+++++++++..       ..
T Consensus        20 ~rP~~~~~ivg~~~~~~~l~~~l~-----~~~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~~-------~~   87 (324)
T 3u61_B           20 YRPSTIDECILPAFDKETFKSITS-----KGKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCK-------ID   87 (324)
T ss_dssp             SCCCSTTTSCCCHHHHHHHHHHHH-----TTCCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTTCC-------HH
T ss_pred             hCCCCHHHHhCcHHHHHHHHHHHH-----cCCCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcccccC-------HH
Confidence            455789999999999999888776     233366788899999999999999999999999999986532       33


Q ss_pred             HHHHHHHHhHhC-----CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccc
Q psy450          281 NIRNVFLKARSA-----APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAI  355 (478)
Q Consensus       281 ~~~~~~~~a~~~-----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l  355 (478)
                      .++..+......     .+.+|+|||+|.+.+            ....+.|+..++..  ..++.+|++||.+..+++++
T Consensus        88 ~i~~~~~~~~~~~~~~~~~~vliiDEi~~l~~------------~~~~~~L~~~le~~--~~~~~iI~~~n~~~~l~~~l  153 (324)
T 3u61_B           88 FVRGPLTNFASAASFDGRQKVIVIDEFDRSGL------------AESQRHLRSFMEAY--SSNCSIIITANNIDGIIKPL  153 (324)
T ss_dssp             HHHTHHHHHHHBCCCSSCEEEEEEESCCCGGG------------HHHHHHHHHHHHHH--GGGCEEEEEESSGGGSCTTH
T ss_pred             HHHHHHHHHHhhcccCCCCeEEEEECCcccCc------------HHHHHHHHHHHHhC--CCCcEEEEEeCCccccCHHH
Confidence            444444433222     568999999999862            12345555555532  24578889999999999999


Q ss_pred             cCCCCCCeEEEeCCCCCHHHHHHHHHHH
Q psy450          356 LRPGRLDKSLYVGLYEDRISQLGVLKAV  383 (478)
Q Consensus       356 ~~~~Rf~~~i~~~~pp~~~~r~~il~~~  383 (478)
                      ++  ||. .+.++. |+.+++..|++.+
T Consensus       154 ~s--R~~-~i~~~~-~~~~e~~~il~~~  177 (324)
T 3u61_B          154 QS--RCR-VITFGQ-PTDEDKIEMMKQM  177 (324)
T ss_dssp             HH--HSE-EEECCC-CCHHHHHHHHHHH
T ss_pred             Hh--hCc-EEEeCC-CCHHHHHHHHHHH
Confidence            99  994 688876 6888876665443

>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=99.67  E-value=6.8e-15  Score=137.12  Aligned_cols=202  Identities=18%  Similarity=0.205  Sum_probs=141.6

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      ..+..+++++|.+..++.+...+..     +..+..++|+||||+|||++++.+++.++..                   
T Consensus        17 ~~p~~~~~~~g~~~~~~~l~~~l~~-----~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (250)
T 1njg_A           17 WRPQTFADVVGQEHVLTALANGLSL-----GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQ   91 (250)
T ss_dssp             TCCCSGGGCCSCHHHHHHHHHHHHH-----TCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHT
T ss_pred             cCCccHHHHhCcHHHHHHHHHHHHc-----CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhc
Confidence            3456688999999999998887753     2224579999999999999999999887432                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           ++.++...      ......++.++..+.    ...+.+|+|||+|.+.             ....+.++..++.
T Consensus        92 ~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~-------------~~~~~~l~~~l~~  152 (250)
T 1njg_A           92 GRFVDLIEIDAAS------RTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLS-------------RHSFNALLKTLEE  152 (250)
T ss_dssp             TCCSSEEEEETTC------GGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSC-------------HHHHHHHHHHHHS
T ss_pred             cCCcceEEecCcc------cccHHHHHHHHHHhhhchhcCCceEEEEECccccc-------------HHHHHHHHHHHhc
Confidence                 22222211      112334555555442    2357899999999985             2455667777764


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di  411 (478)
                        ...++.+|++||.+..+++.+.+  |+ ..+.++. ++.++..++++.++...+...+ ..+..++..+ .| +.+.+
T Consensus       153 --~~~~~~~i~~t~~~~~~~~~l~~--r~-~~i~l~~-l~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~-~G-~~~~~  224 (250)
T 1njg_A          153 --PPEHVKFLLATTDPQKLPVTILS--RC-LQFHLKA-LDVEQIRHQLEHILNEEHIAHEPRALQLLARAA-EG-SLRDA  224 (250)
T ss_dssp             --CCTTEEEEEEESCGGGSCHHHHT--TS-EEEECCC-CCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHH-TT-CHHHH
T ss_pred             --CCCceEEEEEeCChHhCCHHHHH--Hh-hhccCCC-CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHc-CC-CHHHH
Confidence              24578889999998889999988  75 6778875 7889999999888865543322 2366777776 55 67788


Q ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          412 YSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       412 ~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      .++++.|...              ....||.+|+.++
T Consensus       225 ~~~~~~~~~~--------------~~~~i~~~~v~~~  247 (250)
T 1njg_A          225 LSLTDQAIAS--------------GDGQVSTQAVSAM  247 (250)
T ss_dssp             HHHHHHHHTT--------------TTSSBCHHHHHHH
T ss_pred             HHHHHHHHhc--------------cCceecHHHHHHH
Confidence            8877766411              1226999999988

>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=99.67  E-value=7.8e-16  Score=143.83  Aligned_cols=205  Identities=11%  Similarity=0.074  Sum_probs=134.3

Q ss_pred             CCCCCcccccCc---HHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEechhhhhhh
Q psy450          201 VPNVSWEDIGGL---SKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR---MNFLAVKGPELLNKY  274 (478)
Q Consensus       201 ~~~~~~~~i~g~---~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~~~~l~~~~  274 (478)
                      .|..+|++++|.   +.+.+.+.......      .+.+++|+||||||||++++++++.+.   .+++++++.++....
T Consensus        22 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~~~   95 (242)
T 3bos_A           22 PDDETFTSYYPAAGNDELIGALKSAASGD------GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGIHASIS   95 (242)
T ss_dssp             CTTCSTTTSCC--CCHHHHHHHHHHHHTC------SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGGGSC
T ss_pred             CCCCChhhccCCCCCHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHH
Confidence            455788998872   45555555544321      267899999999999999999998874   788899987765432


Q ss_pred             hcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCe-EEEEEcCCCC---C
Q psy450          275 IGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDV-FILGATNRVD---L  350 (478)
Q Consensus       275 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v-~vI~ttn~~~---~  350 (478)
                      ..        .+..  ...+.+|+|||++.+....           .....++..++.......+ +|++++..+.   .
T Consensus        96 ~~--------~~~~--~~~~~vliiDe~~~~~~~~-----------~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~  154 (242)
T 3bos_A           96 TA--------LLEG--LEQFDLICIDDVDAVAGHP-----------LWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGF  154 (242)
T ss_dssp             GG--------GGTT--GGGSSEEEEETGGGGTTCH-----------HHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTC
T ss_pred             HH--------HHHh--ccCCCEEEEeccccccCCH-----------HHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHH
Confidence            11        1111  1346799999999986421           1122333333322223334 5555554443   3


Q ss_pred             CCccccCCCCCC--eEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHH
Q psy450          351 LDPAILRPGRLD--KSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII  427 (478)
Q Consensus       351 ld~~l~~~~Rf~--~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~  427 (478)
                      +++.+.+  ||.  ..+.++. |+.+++.++++.+++..+..-+ ..+..++..+ . -+.+++.++++.+...|...  
T Consensus       155 ~~~~l~~--r~~~~~~i~l~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~-~-g~~r~l~~~l~~~~~~a~~~--  227 (242)
T 3bos_A          155 VLPDLVS--RMHWGLTYQLQP-MMDDEKLAALQRRAAMRGLQLPEDVGRFLLNRM-A-RDLRTLFDVLDRLDKASMVH--  227 (242)
T ss_dssp             CCHHHHH--HHHHSEEEECCC-CCGGGHHHHHHHHHHHTTCCCCHHHHHHHHHHT-T-TCHHHHHHHHHHHHHHHHHH--
T ss_pred             hhhhhhh--HhhcCceEEeCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-c-CCHHHHHHHHHHHHHHHHHh--
Confidence            5578887  775  7888886 6889999999988876554322 2256677765 3 36778888888887766433  


Q ss_pred             hcCCCCCCCCccccHHHHHhc
Q psy450          428 TSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       428 ~~~~~~~~~~~~it~~d~~~A  448 (478)
                               ...||.+|+.++
T Consensus       228 ---------~~~It~~~v~~~  239 (242)
T 3bos_A          228 ---------QRKLTIPFVKEM  239 (242)
T ss_dssp             ---------TCCCCHHHHHHH
T ss_pred             ---------CCCCcHHHHHHH
Confidence                     235999999988

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.66  E-value=4.9e-16  Score=147.33  Aligned_cols=143  Identities=17%  Similarity=0.190  Sum_probs=121.3

Q ss_pred             cchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhccCCCcEEEEe
Q psy450           28 RYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL   94 (478)
Q Consensus        28 ~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via   94 (478)
                      ...+++.+|+ .|+...|+|+||||+|.++..+             .++.++..+|++            ....+++||+
T Consensus        89 ~~~~~~~~~~-~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~------------~~~~~~~vI~  155 (257)
T 1lv7_A           89 GASRVRDMFE-QAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGF------------EGNEGIIVIA  155 (257)
T ss_dssp             CHHHHHHHHH-HHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTC------------CSSSCEEEEE
T ss_pred             hHHHHHHHHH-HHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCc------------ccCCCEEEEE
Confidence            3457899999 9988899999999999998643             466777777753            3455677777


Q ss_pred             -------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHH
Q psy450           95 -------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNK  165 (478)
Q Consensus        95 -------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a  165 (478)
                             +|++++|  ||++.++++.|+.++|.+||+.+++..  ++..+.++ ..++..++||+++|++.+|++|+..+
T Consensus       156 ~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~--~l~~~~~~-~~la~~~~G~~~~dl~~l~~~a~~~a  232 (257)
T 1lv7_A          156 ATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRV--PLAPDIDA-AIIARGTPGFSGADLANLVNEAALFA  232 (257)
T ss_dssp             EESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS--CBCTTCCH-HHHHHTCTTCCHHHHHHHHHHHHHHH
T ss_pred             eeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcC--CCCccccH-HHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence                   8999999  999999999999999999999999876  55566666 89999999999999999999999988


Q ss_pred             HHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          166 MLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       166 ~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      ..+   +...|+.+||..++..+.
T Consensus       233 ~~~---~~~~i~~~~~~~a~~~~~  253 (257)
T 1lv7_A          233 ARG---NKRVVSMVEFEKAKDKIM  253 (257)
T ss_dssp             HHT---TCSSBCHHHHHHHHHHHT
T ss_pred             HHh---CCCcccHHHHHHHHHHHh
Confidence            754   457899999999998875

>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=99.65  E-value=1.6e-15  Score=150.87  Aligned_cols=153  Identities=12%  Similarity=0.144  Sum_probs=122.9

Q ss_pred             cchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCCcEEEEe---
Q psy450           28 RYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---   94 (478)
Q Consensus        28 ~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---   94 (478)
                      ....++.+|. .++..+|+||||||+|.+++.+          .++.+|..+|+...          ....+|+||+   
T Consensus       161 ~~~~~~~~~~-~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~----------~~~~~v~vI~atn  229 (357)
T 3d8b_A          161 GEKMVRALFA-VARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATT----------SSEDRILVVGATN  229 (357)
T ss_dssp             HHHHHHHHHH-HHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC--------------CCCCEEEEEEES
T ss_pred             HHHHHHHHHH-HHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccc----------cCCCCEEEEEecC
Confidence            3447889998 8998999999999999998753          56778888886421          2345688887   


Q ss_pred             ----eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhc
Q psy450           95 ----IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQG  170 (478)
Q Consensus        95 ----ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~  170 (478)
                          +|++++|||+..++++.|+.++|.+|++.++...+  ...+.+.++.++..++||+++|+..+|++|+..++++..
T Consensus       230 ~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~--~~l~~~~l~~la~~t~G~s~~dl~~l~~~a~~~~ir~l~  307 (357)
T 3d8b_A          230 RPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQ--CCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIRSLQ  307 (357)
T ss_dssp             CGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSC--BCCCHHHHHHHHHHTTTCCHHHHHHHHHHHHTHHHHHCC
T ss_pred             ChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcC--CCccHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHhh
Confidence                99999999999999999999999999999997763  233444459999999999999999999999988876421


Q ss_pred             ---------CCCCCCCHHHHHHHHHHhhhhcc
Q psy450          171 ---------INKRDLQKEDFQQIYDDLQSRYS  193 (478)
Q Consensus       171 ---------~~~~~it~~d~~~a~~~~~~~~~  193 (478)
                               .....|+.+||..++..++|+..
T Consensus       308 ~~~~~~~~~~~~~~i~~~d~~~al~~~~ps~~  339 (357)
T 3d8b_A          308 TADIATITPDQVRPIAYIDFENAFRTVRPSVS  339 (357)
T ss_dssp             C----------CCCBCHHHHHHHHHHHGGGCC
T ss_pred             hhhhccccccccCCcCHHHHHHHHHhcCCCCC
Confidence                     23568999999999999988643

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.65  E-value=2.8e-16  Score=161.43  Aligned_cols=145  Identities=15%  Similarity=0.187  Sum_probs=123.3

Q ss_pred             cchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhccCCCcEEEEe
Q psy450           28 RYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL   94 (478)
Q Consensus        28 ~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via   94 (478)
                      ...+++.+|+ .++...|||+||||+|+++..+             .++++|.+||+.            .....++|+|
T Consensus       108 ~~~~v~~lfq-~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~------------~~~~~viviA  174 (499)
T 2dhr_A          108 GAARVRDLFE-TAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGF------------EKDTAIVVMA  174 (499)
T ss_dssp             HHHHHHHHTT-TSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGC------------CSSCCCEEEE
T ss_pred             HHHHHHHHHH-HHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhccc------------ccCccEEEEE
Confidence            4457889998 8888899999999999997643             567888888853            4455677887


Q ss_pred             -------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHH
Q psy450           95 -------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNK  165 (478)
Q Consensus        95 -------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a  165 (478)
                             +||+++|  ||++.|+|+.||.++|.+||+.+++..  ++..++++ ..++..|+||+|+||+++|++|+..+
T Consensus       175 atn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~--~l~~dv~l-~~lA~~t~G~~gadL~~lv~~Aa~~A  251 (499)
T 2dhr_A          175 ATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGK--PLAEDVDL-ALLAKRTPGFVGADLENLLNEAALLA  251 (499)
T ss_dssp             CCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSS--CCCCSSTT-HHHHTTSCSCCHHHHHHHHHHHHHHH
T ss_pred             ecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcC--CCChHHHH-HHHHHhcCCCCHHHHHHHHHHHHHHH
Confidence                   9999999  999999999999999999999998766  66677777 99999999999999999999999887


Q ss_pred             HHhhcCCCCCCCHHHHHHHHHHhhhh
Q psy450          166 MLKQGINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       166 ~~~~~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      .++   +...|+.+||..++..+.+.
T Consensus       252 ~~~---~~~~It~~dl~~al~~v~~~  274 (499)
T 2dhr_A          252 ARE---GRRKITMKDLEEAADRVMML  274 (499)
T ss_dssp             TTT---CCSSCCSHHHHHHHHHHTTC
T ss_pred             HHh---CCCccCHHHHHHHHHHHhcc
Confidence            643   45689999999999988654

>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=99.65  E-value=7.8e-16  Score=154.17  Aligned_cols=219  Identities=19%  Similarity=0.238  Sum_probs=145.8

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh------CCcEEEEechhhhh----
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC------RMNFLAVKGPELLN----  272 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~------~~~~~~v~~~~l~~----  272 (478)
                      ....++++|.++..+.+.+.+......  ..+.+++|+||||||||++++.+++.+      +.+++++++.....    
T Consensus        16 ~~~p~~~~gr~~e~~~l~~~l~~~~~~--~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~   93 (386)
T 2qby_A           16 DYIPDELPHREDQIRKIASILAPLYRE--EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRV   93 (386)
T ss_dssp             SCCCSCCTTCHHHHHHHHHSSGGGGGT--CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHH
T ss_pred             ccCCCCCCChHHHHHHHHHHHHHHHcC--CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHH
Confidence            344588999999999998877654322  236689999999999999999999988      88999999764321    


Q ss_pred             --hh----------hcchHH-HHHHHHHHhHhC-CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCC
Q psy450          273 --KY----------IGQSEE-NIRNVFLKARSA-APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD  338 (478)
Q Consensus       273 --~~----------~g~~~~-~~~~~~~~a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  338 (478)
                        ..          .+.+.. ....++...... .|++|+|||++.+....+         ...+..++..++.. ...+
T Consensus        94 ~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~---------~~~l~~l~~~~~~~-~~~~  163 (386)
T 2qby_A           94 LADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYN---------DDILYKLSRINSEV-NKSK  163 (386)
T ss_dssp             HHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSC---------STHHHHHHHHHHSC-CC--
T ss_pred             HHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCc---------CHHHHHHhhchhhc-CCCe
Confidence              10          111222 234444444433 389999999999874321         13556666666543 3457


Q ss_pred             eEEEEEcCCC---CCCCccccCCCCCC-eEEEeCCCCCHHHHHHHHHHHHhc-C---CCCCCCCHHHHHHhcCC--CCCH
Q psy450          339 VFILGATNRV---DLLDPAILRPGRLD-KSLYVGLYEDRISQLGVLKAVVRK-F---KLSDDVSLDSLVHHFPS--QMSG  408 (478)
Q Consensus       339 v~vI~ttn~~---~~ld~~l~~~~Rf~-~~i~~~~pp~~~~r~~il~~~~~~-~---~~~~~~~~~~la~~~~~--~~sg  408 (478)
                      +.+|++||.+   ..+++.+.+  ||. ..+.++. ++.++..++++..+.. .   .++.+ .+..++..+ .  .-+.
T Consensus       164 ~~~I~~~~~~~~~~~~~~~~~~--r~~~~~i~l~~-l~~~~~~~il~~~~~~~~~~~~~~~~-~~~~l~~~~-~~~~G~~  238 (386)
T 2qby_A          164 ISFIGITNDVKFVDLLDPRVKS--SLSEEEIIFPP-YNAEELEDILTKRAQMAFKPGVLPDN-VIKLCAALA-AREHGDA  238 (386)
T ss_dssp             EEEEEEESCGGGGGGCTTHHHH--TTTTEEEEECC-CCHHHHHHHHHHHHHHHBCSSCSCHH-HHHHHHHHH-HHTTCCH
T ss_pred             EEEEEEECCCChHhhhCHHHhc--cCCCeeEEeCC-CCHHHHHHHHHHHHHhhccCCCCCHH-HHHHHHHHH-HHhcCCH
Confidence            8889999887   457788887  776 4788875 7899999999887653 1   22221 244455544 2  0344


Q ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          409 ADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       409 ~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      +.+.++|..|+..+..+          ....||.+|+..|
T Consensus       239 r~~~~ll~~a~~~a~~~----------~~~~i~~~~v~~a  268 (386)
T 2qby_A          239 RRALDLLRVSGEIAERM----------KDTKVKEEYVYMA  268 (386)
T ss_dssp             HHHHHHHHHHHHHHHHT----------TCSSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhc----------CCCccCHHHHHHH
Confidence            56667777776655432          1346999999988

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.64  E-value=1.3e-15  Score=150.04  Aligned_cols=155  Identities=23%  Similarity=0.273  Sum_probs=106.2

Q ss_pred             cccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh--hhhhcchHHH-H
Q psy450          206 WEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL--NKYIGQSEEN-I  282 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~--~~~~g~~~~~-~  282 (478)
                      +++++|++.+++.+...+..        +.++||+||||||||++|+++++.++.+++.+++..-.  ....|..... .
T Consensus        26 ~~~i~g~~~~~~~l~~~l~~--------~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l~g~~~~~~~   97 (331)
T 2r44_A           26 GKVVVGQKYMINRLLIGICT--------GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDLIGTMIYNQH   97 (331)
T ss_dssp             TTTCCSCHHHHHHHHHHHHH--------TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHHHEEEEEETT
T ss_pred             ccceeCcHHHHHHHHHHHHc--------CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhcCCceeecCC
Confidence            45788999999887766543        34799999999999999999999999999998873110  1111110000 0


Q ss_pred             HHHHHHhHhCC---CeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC---------CCCCCeEEEEEcCCCC-
Q psy450          283 RNVFLKARSAA---PCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV---------HTSQDVFILGATNRVD-  349 (478)
Q Consensus       283 ~~~~~~a~~~~---p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~---------~~~~~v~vI~ttn~~~-  349 (478)
                      ...+  ....+   .+|+||||++.+.+             ...+.|+..++..         ....+++||+|+|..+ 
T Consensus        98 ~~~~--~~~~g~l~~~vl~iDEi~~~~~-------------~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~~~  162 (331)
T 2r44_A           98 KGNF--EVKKGPVFSNFILADEVNRSPA-------------KVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPVEQ  162 (331)
T ss_dssp             TTEE--EEEECTTCSSEEEEETGGGSCH-------------HHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTTCC
T ss_pred             CCce--EeccCcccccEEEEEccccCCH-------------HHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCCcc
Confidence            0000  00011   26999999999862             3455555555421         1234678888888543 


Q ss_pred             ----CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc
Q psy450          350 ----LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK  386 (478)
Q Consensus       350 ----~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~  386 (478)
                          .+++++++  ||+..+.++. |+.+++.+|++.....
T Consensus       163 ~~~~~l~~~l~~--Rf~~~i~i~~-p~~~~~~~il~~~~~~  200 (331)
T 2r44_A          163 EGTYPLPEAQVD--RFMMKIHLTY-LDKESELEVMRRVSNM  200 (331)
T ss_dssp             SCCCCCCHHHHT--TSSEEEECCC-CCHHHHHHHHHHHHCT
T ss_pred             cCcccCCHHHHh--heeEEEEcCC-CCHHHHHHHHHhcccc
Confidence                38999999  9998899987 6999999999887754

>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=99.64  E-value=1.8e-14  Score=141.83  Aligned_cols=211  Identities=18%  Similarity=0.255  Sum_probs=145.9

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHH
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEE  280 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~  280 (478)
                      .....+++++|.+.+++.+...+..... .+.++.+++|+|||||||||+++++|+.++.++...+++.+.      ...
T Consensus        19 lr~~~l~~~~g~~~~~~~l~~~i~~~~~-~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~------~~~   91 (334)
T 1in4_A           19 LRPKSLDEFIGQENVKKKLSLALEAAKM-RGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLV------KQG   91 (334)
T ss_dssp             TSCSSGGGCCSCHHHHHHHHHHHHHHHH-HTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCC------SHH
T ss_pred             cCCccHHHccCcHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhc------CHH
Confidence            4455789999999999888876654422 233457799999999999999999999999988777654332      112


Q ss_pred             HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC----------------CCCCeEEEEE
Q psy450          281 NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH----------------TSQDVFILGA  344 (478)
Q Consensus       281 ~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~----------------~~~~v~vI~t  344 (478)
                      .+..++...  ..++|+||||++.+.+             .....++..++...                .-..+.++++
T Consensus        92 ~l~~~~~~~--~~~~v~~iDE~~~l~~-------------~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~a  156 (334)
T 1in4_A           92 DMAAILTSL--ERGDVLFIDEIHRLNK-------------AVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGA  156 (334)
T ss_dssp             HHHHHHHHC--CTTCEEEEETGGGCCH-------------HHHHHHHHHHHTSCCCC---------------CCCEEEEE
T ss_pred             HHHHHHHHc--cCCCEEEEcchhhcCH-------------HHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEe
Confidence            233333322  2457999999999863             11222222222111                0124677889


Q ss_pred             cCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Q psy450          345 TNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWTRAI  423 (478)
Q Consensus       345 tn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~~a~  423 (478)
                      |+++..+++.+++  ||.....++. ++.+++.+|++...+..++..+ .....++.++ .| +.+.+.++++.+...|.
T Consensus       157 t~~~~~Ls~~l~s--R~~l~~~Ld~-~~~~~l~~iL~~~~~~~~~~~~~~~~~~ia~~~-~G-~~R~a~~ll~~~~~~a~  231 (334)
T 1in4_A          157 TTRSGLLSSPLRS--RFGIILELDF-YTVKELKEIIKRAASLMDVEIEDAAAEMIAKRS-RG-TPRIAIRLTKRVRDMLT  231 (334)
T ss_dssp             ESCGGGSCHHHHT--TCSEEEECCC-CCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTS-TT-CHHHHHHHHHHHHHHHH
T ss_pred             cCCcccCCHHHHH--hcCceeeCCC-CCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhc-CC-ChHHHHHHHHHHHHHHH
Confidence            9999999999999  9988888886 7999999999988776554422 2266677765 44 55778888887776665


Q ss_pred             HHHHhcCCCCCCCCccccHHHHHhc
Q psy450          424 RRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       424 ~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      .+.          ...||.+++.+|
T Consensus       232 ~~~----------~~~It~~~v~~a  246 (334)
T 1in4_A          232 VVK----------ADRINTDIVLKT  246 (334)
T ss_dssp             HHT----------CSSBCHHHHHHH
T ss_pred             HcC----------CCCcCHHHHHHH
Confidence            432          346888888888

>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=99.64  E-value=3.4e-15  Score=149.92  Aligned_cols=217  Identities=14%  Similarity=0.091  Sum_probs=146.4

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEechhhhh------h
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKGPELLN------K  273 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~~~l~~------~  273 (478)
                      ...++++|.++..+.+...+..........+++++|+||||||||++++++++.+    +.+++++++....+      .
T Consensus        14 ~~p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   93 (389)
T 1fnn_A           14 YVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGE   93 (389)
T ss_dssp             CCCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHH
T ss_pred             cCCCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHHH
Confidence            3447899999999999988876544322112379999999999999999999988    57889998754321      1


Q ss_pred             h----------hcchHHH-HHHHHHHhH-hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC--CCCe
Q psy450          274 Y----------IGQSEEN-IRNVFLKAR-SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT--SQDV  339 (478)
Q Consensus       274 ~----------~g~~~~~-~~~~~~~a~-~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~v  339 (478)
                      .          .+.+... ...+..... ...|.+|+|||+|.+.             ...+..|+..++....  ..++
T Consensus        94 l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~-------------~~~~~~L~~~~~~~~~~~~~~~  160 (389)
T 1fnn_A           94 IARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLA-------------PDILSTFIRLGQEADKLGAFRI  160 (389)
T ss_dssp             HHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSC-------------HHHHHHHHHHTTCHHHHSSCCE
T ss_pred             HHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccc-------------hHHHHHHHHHHHhCCCCCcCCE
Confidence            0          1112222 222222222 2458899999999983             3566777777764322  1478


Q ss_pred             EEEEEcCCC---CCCCccccCCCCCCe-EEEeCCCCCHHHHHHHHHHHHhc----CCCCCCCCHHHHHHhcCCC------
Q psy450          340 FILGATNRV---DLLDPAILRPGRLDK-SLYVGLYEDRISQLGVLKAVVRK----FKLSDDVSLDSLVHHFPSQ------  405 (478)
Q Consensus       340 ~vI~ttn~~---~~ld~~l~~~~Rf~~-~i~~~~pp~~~~r~~il~~~~~~----~~~~~~~~~~~la~~~~~~------  405 (478)
                      .+|++||.+   ..+++.+.+  ||.. .+.++. ++.++...+++..+..    ..++ +..+..++..+ .+      
T Consensus       161 ~iI~~~~~~~~~~~l~~~~~~--r~~~~~i~~~p-l~~~~~~~~l~~~~~~~~~~~~~~-~~~~~~l~~~~-~~~~~~~~  235 (389)
T 1fnn_A          161 ALVIVGHNDAVLNNLDPSTRG--IMGKYVIRFSP-YTKDQIFDILLDRAKAGLAEGSYS-EDILQMIADIT-GAQTPLDT  235 (389)
T ss_dssp             EEEEEESSTHHHHTSCHHHHH--HHTTCEEECCC-CBHHHHHHHHHHHHHHHBCTTSSC-HHHHHHHHHHH-SBSSTTCT
T ss_pred             EEEEEECCchHHHHhCHHhhh--cCCCceEEeCC-CCHHHHHHHHHHHHHhhcCCCCCC-HHHHHHHHHHH-hhcccCCC
Confidence            899999988   667888877  8775 788875 7888999999887754    1222 22255666665 21      


Q ss_pred             --CCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          406 --MSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       406 --~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                        -..+.+.++|+.|+..|..+.          ...++.+|+..|
T Consensus       236 ~~G~~r~~~~~l~~a~~~a~~~~----------~~~i~~~~v~~~  270 (389)
T 1fnn_A          236 NRGDARLAIDILYRSAYAAQQNG----------RKHIAPEDVRKS  270 (389)
T ss_dssp             TSCCHHHHHHHHHHHHHHHHHTT----------CSSCCHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHHHHHhC----------CCCcCHHHHHHH
Confidence              244567788888876665432          346899999988

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.64  E-value=1.8e-15  Score=145.50  Aligned_cols=147  Identities=17%  Similarity=0.225  Sum_probs=122.4

Q ss_pred             chhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhccCCCcEEEEe-
Q psy450           29 YHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-   94 (478)
Q Consensus        29 ~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-   94 (478)
                      ...++.+|. .++..+|+||||||+|.+++++             .+..++..+|+.            ....+++||+ 
T Consensus        96 ~~~~~~~~~-~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~------------~~~~~~~vI~t  162 (285)
T 3h4m_A           96 ASLVKDIFK-LAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGF------------DARGDVKIIGA  162 (285)
T ss_dssp             HHHHHHHHH-HHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTT------------CSSSSEEEEEE
T ss_pred             HHHHHHHHH-HHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCC------------CCCCCEEEEEe
Confidence            447888999 9999999999999999997533             345555555532            3455687887 


Q ss_pred             ------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHH
Q psy450           95 ------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKM  166 (478)
Q Consensus        95 ------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~  166 (478)
                            +|++++|  ||+..++++.|+.++|.+||+.++...  .+..+.++ ..++..+.|+++++++.+|+.|...+.
T Consensus       163 tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~--~~~~~~~~-~~l~~~~~g~~~~~i~~l~~~a~~~a~  239 (285)
T 3h4m_A          163 TNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKM--NLAEDVNL-EEIAKMTEGCVGAELKAICTEAGMNAI  239 (285)
T ss_dssp             CSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTS--CBCTTCCH-HHHHHHCTTCCHHHHHHHHHHHHHHHH
T ss_pred             CCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcC--CCCCcCCH-HHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence                  9999999  999999999999999999999999876  44556676 999999999999999999999999998


Q ss_pred             HhhcCCCCCCCHHHHHHHHHHhhhhccc
Q psy450          167 LKQGINKRDLQKEDFQQIYDDLQSRYSD  194 (478)
Q Consensus       167 ~~~~~~~~~it~~d~~~a~~~~~~~~~~  194 (478)
                      .+   ....|+.+|+..++..+.+....
T Consensus       240 ~~---~~~~I~~~d~~~al~~~~~~~~~  264 (285)
T 3h4m_A          240 RE---LRDYVTMDDFRKAVEKIMEKKKV  264 (285)
T ss_dssp             HT---TCSSBCHHHHHHHHHHHHHHHCC
T ss_pred             Hh---ccCcCCHHHHHHHHHHHHhcccc
Confidence            65   46679999999999998765543

>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=99.64  E-value=1e-15  Score=159.60  Aligned_cols=196  Identities=20%  Similarity=0.258  Sum_probs=123.9

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhh-------CCC----CCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEech
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRT-------SGL----KRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGP  268 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~-------~~~----~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~  268 (478)
                      .+.+.+|++++|.+.+++.+.+.+......       .|.    .++++||+||||||||++|+++|++++.+++.++++
T Consensus        32 kyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~in~s  111 (516)
T 1sxj_A           32 KYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNAS  111 (516)
T ss_dssp             HTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTT
T ss_pred             ccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeCC
Confidence            345668999999999999999988764211       111    257899999999999999999999999999999987


Q ss_pred             hhhhhhhcchHH-------HHHHHHHHh-----HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCC
Q psy450          269 ELLNKYIGQSEE-------NIRNVFLKA-----RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTS  336 (478)
Q Consensus       269 ~l~~~~~g~~~~-------~~~~~~~~a-----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  336 (478)
                      +...........       .+..+|..+     ....++||+|||+|.+....          ...+..++..++.  ..
T Consensus       112 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~----------~~~l~~L~~~l~~--~~  179 (516)
T 1sxj_A          112 DVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGD----------RGGVGQLAQFCRK--TS  179 (516)
T ss_dssp             SCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTS----------TTHHHHHHHHHHH--CS
T ss_pred             CcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhh----------HHHHHHHHHHHHh--cC
Confidence            754332111000       011222222     23567899999999997532          1123444444442  22


Q ss_pred             CCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc--CCCCCCCCHHHHHHhcCCCCCHHHHHHH
Q psy450          337 QDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK--FKLSDDVSLDSLVHHFPSQMSGADIYSI  414 (478)
Q Consensus       337 ~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~--~~~~~~~~~~~la~~~~~~~sg~di~~l  414 (478)
                      ..+++++++.....++ .++   |+...+.++. |+.+++.++++..+..  ..++++. +..++..+ .    +|++.+
T Consensus       180 ~~iIli~~~~~~~~l~-~l~---~r~~~i~f~~-~~~~~~~~~L~~i~~~~~~~i~~~~-l~~la~~s-~----GdiR~~  248 (516)
T 1sxj_A          180 TPLILICNERNLPKMR-PFD---RVCLDIQFRR-PDANSIKSRLMTIAIREKFKLDPNV-IDRLIQTT-R----GDIRQV  248 (516)
T ss_dssp             SCEEEEESCTTSSTTG-GGT---TTSEEEECCC-CCHHHHHHHHHHHHHHHTCCCCTTH-HHHHHHHT-T----TCHHHH
T ss_pred             CCEEEEEcCCCCccch-hhH---hceEEEEeCC-CCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHc-C----CcHHHH
Confidence            2344444333333343 344   4456888886 7899998998776654  3444443 77777765 2    355555


Q ss_pred             HHHH
Q psy450          415 CSNA  418 (478)
Q Consensus       415 ~~~a  418 (478)
                      ++..
T Consensus       249 i~~L  252 (516)
T 1sxj_A          249 INLL  252 (516)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

>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=99.63  E-value=1.6e-15  Score=165.71  Aligned_cols=223  Identities=17%  Similarity=0.232  Sum_probs=154.4

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhh-
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELL-  271 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~-  271 (478)
                      ...+++++|.+..++.+.+.+...      .+.+++|+||||||||++|+++++.+          +.+++.++...+. 
T Consensus       182 ~~~~d~~iGr~~~i~~l~~~l~~~------~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~  255 (758)
T 1r6b_X          182 VGGIDPLIGREKELERAIQVLCRR------RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLA  255 (758)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTSS------SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---C
T ss_pred             cCCCCCccCCHHHHHHHHHHHhcc------CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhc
Confidence            346889999999988887765422      36789999999999999999999987          6678888877766 


Q ss_pred             -hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC-
Q psy450          272 -NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD-  349 (478)
Q Consensus       272 -~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~-  349 (478)
                       ..+.|..+..++.++..+....++||||||+|.+.+..+...   + .....+    .+..+....++.+|++||.++ 
T Consensus       256 ~~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~---~-~~~~~~----~L~~~l~~~~~~~I~at~~~~~  327 (758)
T 1r6b_X          256 GTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASG---G-QVDAAN----LIKPLLSSGKIRVIGSTTYQEF  327 (758)
T ss_dssp             CCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSS---C-HHHHHH----HHSSCSSSCCCEEEEEECHHHH
T ss_pred             cccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCc---c-hHHHHH----HHHHHHhCCCeEEEEEeCchHH
Confidence             356788889999999999887889999999999987543211   1 112222    233333456788999998653 


Q ss_pred             ----CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc------CCCCCCCCHHHHHHh----cCCCCCHHHHHHHH
Q psy450          350 ----LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK------FKLSDDVSLDSLVHH----FPSQMSGADIYSIC  415 (478)
Q Consensus       350 ----~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~------~~~~~~~~~~~la~~----~~~~~sg~di~~l~  415 (478)
                          .+|+++.+  ||+ .+.++. |+.+++.+|++.+...      ..++.+ .+..++..    ..+.+.+..+..++
T Consensus       328 ~~~~~~d~aL~~--Rf~-~i~v~~-p~~~e~~~il~~l~~~~~~~~~v~~~~~-al~~~~~~s~~~i~~~~lp~~~i~ll  402 (758)
T 1r6b_X          328 SNIFEKDRALAR--RFQ-KIDITE-PSIEETVQIINGLKPKYEAHHDVRYTAK-AVRAAVELAVKYINDRHLPDKAIDVI  402 (758)
T ss_dssp             HCCCCCTTSSGG--GEE-EEECCC-CCHHHHHHHHHHHHHHHHHHHTCCCCHH-HHHHHHHHHHHHCTTSCTTHHHHHHH
T ss_pred             hhhhhcCHHHHh--Cce-EEEcCC-CCHHHHHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHHhhhhcccccCchHHHHHH
Confidence                46889999  997 688886 7899999999887654      222222 13334432    23446666788888


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchh
Q psy450          416 SNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACS  450 (478)
Q Consensus       416 ~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~  450 (478)
                      .+|+..+...  .    .......|+.+|+.++++
T Consensus       403 d~a~~~~~~~--~----~~~~~~~v~~~di~~~~~  431 (758)
T 1r6b_X          403 DEAGARARLM--P----VSKRKKTVNVADIESVVA  431 (758)
T ss_dssp             HHHHHHHHHS--S----SCCCCCSCCHHHHHHHHH
T ss_pred             HHHHHHHhcc--c----ccccCCccCHHHHHHHHH
Confidence            8776433221  0    011245689999999943

>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=99.63  E-value=1.4e-15  Score=143.95  Aligned_cols=138  Identities=15%  Similarity=0.195  Sum_probs=113.9

Q ss_pred             chhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhccCCCcEEEEe-
Q psy450           29 YHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-   94 (478)
Q Consensus        29 ~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-   94 (478)
                      ..+++.+|+ .++...|+++|+||+|.++..+             .++.++.+|++.            .....++++| 
T Consensus        94 ~~~i~~~~~-~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~------------~~~~~~i~~a~  160 (254)
T 1ixz_A           94 AARVRDLFE-TAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGF------------EKDTAIVVMAA  160 (254)
T ss_dssp             HHHHHHHHH-HHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTC------------CTTCCEEEEEE
T ss_pred             HHHHHHHHH-HHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCC------------CCCCCEEEEEc
Confidence            457889998 8887889999999999987543             356677777742            3445577777 


Q ss_pred             ------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHH
Q psy450           95 ------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKM  166 (478)
Q Consensus        95 ------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~  166 (478)
                            +|++++|  ||++.++++.|+.++|.+||+.+.+..  ++..+.++ ..++..|+||+|+|++.++++|+..+.
T Consensus       161 t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~--~~~~~~~~-~~la~~~~G~~~~dl~~~~~~a~~~a~  237 (254)
T 1ixz_A          161 TNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGK--PLAEDVDL-ALLAKRTPGFVGADLENLLNEAALLAA  237 (254)
T ss_dssp             ESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTS--CBCTTCCH-HHHHHTCTTCCHHHHHHHHHHHHHHHH
T ss_pred             cCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCC--CCCcccCH-HHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence                  9999999  999999999999999999999998766  55666777 999999999999999999999999887


Q ss_pred             HhhcCCCCCCCHHHHHHHH
Q psy450          167 LKQGINKRDLQKEDFQQIY  185 (478)
Q Consensus       167 ~~~~~~~~~it~~d~~~a~  185 (478)
                      .+   +...|+.+|+..++
T Consensus       238 ~~---~~~~I~~~dl~~a~  253 (254)
T 1ixz_A          238 RE---GRRKITMKDLEEAA  253 (254)
T ss_dssp             HT---TCSSBCHHHHHHHT
T ss_pred             Hh---cCCCcCHHHHHHHh
Confidence            54   45679999998775

>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=99.63  E-value=1.8e-15  Score=167.07  Aligned_cols=201  Identities=20%  Similarity=0.313  Sum_probs=130.5

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhh-
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELL-  271 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~-  271 (478)
                      +..+++++|.++....+...+..      ..+++++|+||||||||++++++|+.+          +.+++.++++.+. 
T Consensus       166 ~~~ld~viGr~~~i~~l~~~l~~------~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~  239 (854)
T 1qvr_A          166 EGKLDPVIGRDEEIRRVIQILLR------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA  239 (854)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHHC------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----
T ss_pred             cCCCcccCCcHHHHHHHHHHHhc------CCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc
Confidence            34688999999888888776532      125679999999999999999999987          8899999998886 


Q ss_pred             -hhhhcchHHHHHHHHHHhHhC-CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          272 -NKYIGQSEENIRNVFLKARSA-APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       272 -~~~~g~~~~~~~~~~~~a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                       ..+.|..+..+..++..+... .|+||||||+|.+.+.....+  .   ..+.+.+...++    ..++.+|++||.++
T Consensus       240 g~~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g--~---~~~~~~L~~~l~----~~~i~~I~at~~~~  310 (854)
T 1qvr_A          240 GAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEG--A---VDAGNMLKPALA----RGELRLIGATTLDE  310 (854)
T ss_dssp             ------CHHHHHHHHHHHHHTTCSSEEEEECCC------------------------HHHHH----TTCCCEEEEECHHH
T ss_pred             cCccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccc--h---HHHHHHHHHHHh----CCCeEEEEecCchH
Confidence             567788888999999988765 689999999999986543211  1   122333333333    34577888888764


Q ss_pred             ----CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCC------CCCCCCHHHHHHh----cCCCCCHHHHHHHH
Q psy450          350 ----LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFK------LSDDVSLDSLVHH----FPSQMSGADIYSIC  415 (478)
Q Consensus       350 ----~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~------~~~~~~~~~la~~----~~~~~sg~di~~l~  415 (478)
                          .+++++.+  ||+. +.++. |+.+++..|++.++....      ++++ .+..++..    .++.|.+.....++
T Consensus       311 ~~~~~~d~aL~r--Rf~~-i~l~~-p~~~e~~~iL~~~~~~~~~~~~~~i~~~-al~~~~~ls~r~i~~~~lp~kai~ll  385 (854)
T 1qvr_A          311 YREIEKDPALER--RFQP-VYVDE-PTVEETISILRGLKEKYEVHHGVRISDS-AIIAAATLSHRYITERRLPDKAIDLI  385 (854)
T ss_dssp             HHHHTTCTTTCS--CCCC-EEECC-CCHHHHHHHHHHHHHHHHHHTTCEECHH-HHHHHHHHHHHHCCSSCTHHHHHHHH
T ss_pred             HhhhccCHHHHh--CCce-EEeCC-CCHHHHHHHHHhhhhhhhhhcCCCCCHH-HHHHHHHHHhhhcccccChHHHHHHH
Confidence                47999999  9986 88986 689999999987765332      2211 13333332    34567777777777


Q ss_pred             HHHHHHHH
Q psy450          416 SNAWTRAI  423 (478)
Q Consensus       416 ~~a~~~a~  423 (478)
                      .+|+..+.
T Consensus       386 dea~a~~~  393 (854)
T 1qvr_A          386 DEAAARLR  393 (854)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77765443

>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=99.63  E-value=8.4e-16  Score=145.88  Aligned_cols=150  Identities=12%  Similarity=0.166  Sum_probs=111.6

Q ss_pred             CccchhhhhHHHHhhhhcCCCeEEEecccccccch--------------hhHhhhccccccccccccchhhhccCCCcEE
Q psy450           26 TPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK--------------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKK   91 (478)
Q Consensus        26 ~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r--------------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~   91 (478)
                      ......++.+|. .++...|+||||||+|.++..+              .++.++..+|..            ....+++
T Consensus        81 ~~~~~~~~~~~~-~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~------------~~~~~~~  147 (262)
T 2qz4_A           81 GLGAARVRSLFK-EARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGM------------GTTDHVI  147 (262)
T ss_dssp             THHHHHHHHHHH-HHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTC------------CTTCCEE
T ss_pred             ChhHHHHHHHHH-HHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCc------------CCCCCEE
Confidence            334557889999 8988899999999999997543              456677777743            3345677


Q ss_pred             EEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhH-HHHHHHhcCCCCHHHHHHHHHHH
Q psy450           92 LVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASL-VEYLSSVTSGFERHDLTCLVRLS  161 (478)
Q Consensus        92 via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~-i~~la~~t~G~s~~di~~l~~~a  161 (478)
                      ||+       +|++++|  ||+..++++.|+.++|.+||+.++...+  +..+.+. ...++..+.||+++++..++++|
T Consensus       148 vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~--~~~~~~~~~~~l~~~~~g~~~~~l~~l~~~a  225 (262)
T 2qz4_A          148 VLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLK--LTQSSTFYSQRLAELTPGFSGADIANICNEA  225 (262)
T ss_dssp             EEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTT--CCBTHHHHHHHHHHTCTTCCHHHHHHHHHHH
T ss_pred             EEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCC--CCcchhhHHHHHHHHCCCCCHHHHHHHHHHH
Confidence            777       8899999  9999999999999999999999998874  3333332 37899999999999999999999


Q ss_pred             HHHHHHhhcCCCCCCCHHHHHHHHHHhhhhcc
Q psy450          162 VKNKMLKQGINKRDLQKEDFQQIYDDLQSRYS  193 (478)
Q Consensus       162 ~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~~  193 (478)
                      +..+..+   +...|+.+||..++..+.++..
T Consensus       226 ~~~a~~~---~~~~i~~~d~~~a~~~~~~~~~  254 (262)
T 2qz4_A          226 ALHAARE---GHTSVHTLNFEYAVERVLAGTA  254 (262)
T ss_dssp             HTC-----------CCBCCHHHHHHHHHHHHH
T ss_pred             HHHHHHc---CCCCCCHHHHHHHHHHhccChh
Confidence            9988754   4567999999999998876543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.62  E-value=2.9e-15  Score=154.14  Aligned_cols=186  Identities=19%  Similarity=0.298  Sum_probs=127.1

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhhh
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELLN  272 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~~  272 (478)
                      +..+++++|.+..++.+...+..      ....++||+||||||||++|+++|+.+          +.+++.+++.   .
T Consensus       176 ~~~ld~iiGr~~~i~~l~~~l~r------~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~---~  246 (468)
T 3pxg_A          176 EDSLDPVIGRSKEIQRVIEVLSR------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG---T  246 (468)
T ss_dssp             SSCSCCCCCCHHHHHHHHHHHHC------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-------
T ss_pred             cCCCCCccCcHHHHHHHHHHHhc------cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC---c
Confidence            45688999999999988877653      125679999999999999999999997          7788888877   6


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC---
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD---  349 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~---  349 (478)
                      .+.|..+..++.+|..+....++|||||     . .           ....+.|+..+    ..+.+.+|++||.++   
T Consensus       247 ~~~g~~e~~~~~~~~~~~~~~~~iLfiD-----~-~-----------~~a~~~L~~~L----~~g~v~vI~at~~~e~~~  305 (468)
T 3pxg_A          247 KYRGEFEDRLKKVMDEIRQAGNIILFID-----A-A-----------IDASNILKPSL----ARGELQCIGATTLDEYRK  305 (468)
T ss_dssp             ------CTTHHHHHHHHHTCCCCEEEEC-----C--------------------CCCT----TSSSCEEEEECCTTTTHH
T ss_pred             cccchHHHHHHHHHHHHHhcCCeEEEEe-----C-c-----------hhHHHHHHHhh----cCCCEEEEecCCHHHHHH
Confidence            6778777888999999988888999999     1 0           11223343333    345789999999987   


Q ss_pred             --CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-----CCHHHHHHhc----CCCCCHHHHHHHHHHH
Q psy450          350 --LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-----VSLDSLVHHF----PSQMSGADIYSICSNA  418 (478)
Q Consensus       350 --~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-----~~~~~la~~~----~~~~sg~di~~l~~~a  418 (478)
                        .+++++++  ||. .+.++. |+.+++..|++.+........+     ..+..++...    .+.+.+.....++..|
T Consensus       306 ~~~~~~al~~--Rf~-~i~v~~-p~~e~~~~iL~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~ai~ll~~a  381 (468)
T 3pxg_A          306 YIEKDAALER--RFQ-PIQVDQ-PSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEA  381 (468)
T ss_dssp             HHTTCSHHHH--SEE-EEECCC-CCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHH
T ss_pred             HhhcCHHHHH--hCc-cceeCC-CCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCCcHHHHHHHHH
Confidence              58999999  997 588886 6999999999987765321111     1133343322    3334455677777777


Q ss_pred             HHHH
Q psy450          419 WTRA  422 (478)
Q Consensus       419 ~~~a  422 (478)
                      +..+
T Consensus       382 ~~~~  385 (468)
T 3pxg_A          382 GSKV  385 (468)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.62  E-value=1.3e-15  Score=136.27  Aligned_cols=151  Identities=19%  Similarity=0.306  Sum_probs=108.1

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhhh
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELLN  272 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~~  272 (478)
                      ...+++++|.+...+.+.+.+..      ..+.+++|+||||||||++++++++.+          +.+++.+++..+..
T Consensus        18 ~~~~~~~~g~~~~~~~l~~~l~~------~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (187)
T 2p65_A           18 AGKLDPVIGRDTEIRRAIQILSR------RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIA   91 (187)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTS------SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHHHHH
T ss_pred             ccccchhhcchHHHHHHHHHHhC------CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHHhhc
Confidence            34588999999988887776543      226679999999999999999999987          77888888877653


Q ss_pred             h--hhcchHHHHHHHHHHhHhC-CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          273 K--YIGQSEENIRNVFLKARSA-APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       273 ~--~~g~~~~~~~~~~~~a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      .  +.+.....+..++..+... .|.+|+|||+|.+.+.+.......    .+.+.+...++    ..++.+|+++|.+.
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~----~~~~~l~~~~~----~~~~~ii~~~~~~~  163 (187)
T 2p65_A           92 GAKYRGDFEERLKSILKEVQDAEGQVVMFIDEIHTVVGAGAVAEGAL----DAGNILKPMLA----RGELRCIGATTVSE  163 (187)
T ss_dssp             HCCSHHHHHHHHHHHHHHHHHTTTSEEEEETTGGGGSSSSSSCTTSC----CTHHHHHHHHH----TTCSCEEEEECHHH
T ss_pred             CCCchhHHHHHHHHHHHHHHhcCCceEEEEeCHHHhcccccccccch----HHHHHHHHHHh----cCCeeEEEecCHHH
Confidence            2  3455566677777776554 678999999999986543111111    12233333333    24677888888765


Q ss_pred             -----CCCccccCCCCCCeEEEeCCC
Q psy450          350 -----LLDPAILRPGRLDKSLYVGLY  370 (478)
Q Consensus       350 -----~ld~~l~~~~Rf~~~i~~~~p  370 (478)
                           .+++++++  ||.. +.++.|
T Consensus       164 ~~~~~~~~~~l~~--R~~~-i~i~~p  186 (187)
T 2p65_A          164 YRQFIEKDKALER--RFQQ-ILVEQP  186 (187)
T ss_dssp             HHHHTTTCHHHHH--HEEE-EECCSC
T ss_pred             HHHHHhccHHHHH--hcCc-ccCCCC
Confidence                 58999999  9984 888763

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.61  E-value=3.7e-15  Score=162.67  Aligned_cols=188  Identities=20%  Similarity=0.305  Sum_probs=130.5

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhh
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELL  271 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~  271 (478)
                      ....+++++|.++.++.+...+..      ....++||+||||||||++|+++|+.+          +.+++.+++   .
T Consensus       175 ~~~~ld~iiG~~~~i~~l~~~l~~------~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~---g  245 (758)
T 3pxi_A          175 KEDSLDPVIGRSKEIQRVIEVLSR------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM---G  245 (758)
T ss_dssp             TSSCSCCCCCCHHHHHHHHHHHHC------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC------
T ss_pred             hhCCCCCccCchHHHHHHHHHHhC------CCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc---c
Confidence            345688999999999998877653      125679999999999999999999997          778888877   5


Q ss_pred             hhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC--
Q psy450          272 NKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD--  349 (478)
Q Consensus       272 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~--  349 (478)
                      ..|.|..+..++.+|..+....|+|||||     ..            ....+.|+..++    .+.+.+|++||..+  
T Consensus       246 ~~~~G~~e~~l~~~~~~~~~~~~~iLfiD-----~~------------~~~~~~L~~~l~----~~~v~~I~at~~~~~~  304 (758)
T 3pxi_A          246 TKYRGEFEDRLKKVMDEIRQAGNIILFID-----AA------------IDASNILKPSLA----RGELQCIGATTLDEYR  304 (758)
T ss_dssp             -------CTTHHHHHHHHHTCCCCEEEEC-----C--------------------CCCTT----SSSCEEEEECCTTTTH
T ss_pred             ccccchHHHHHHHHHHHHHhcCCEEEEEc-----Cc------------hhHHHHHHHHHh----cCCEEEEeCCChHHHH
Confidence            56778888899999999998889999999     10            112233433333    56789999999988  


Q ss_pred             ---CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC-----HHHHHH----hcCCCCCHHHHHHHHHH
Q psy450          350 ---LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS-----LDSLVH----HFPSQMSGADIYSICSN  417 (478)
Q Consensus       350 ---~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~-----~~~la~----~~~~~~sg~di~~l~~~  417 (478)
                         .++++++|  || ..+.++. |+.+++..|++.+.........+.     +..++.    ..++++.+.....++..
T Consensus       305 ~~~~~d~al~r--Rf-~~i~v~~-p~~~~~~~il~~~~~~~~~~~~~~i~~~al~~~~~~s~~~i~~~~~p~~ai~ll~~  380 (758)
T 3pxi_A          305 KYIEKDAALER--RF-QPIQVDQ-PSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDE  380 (758)
T ss_dssp             HHHTTCSHHHH--SE-EEEECCC-CCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHH
T ss_pred             HHhhccHHHHh--hC-cEEEeCC-CCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccCcCCcHHHHHHHH
Confidence               69999999  99 5699987 699999999998776533222222     333332    23456777777777777


Q ss_pred             HHHHHH
Q psy450          418 AWTRAI  423 (478)
Q Consensus       418 a~~~a~  423 (478)
                      |+..+.
T Consensus       381 a~~~~~  386 (758)
T 3pxi_A          381 AGSKVR  386 (758)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            765443

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.60  E-value=6e-15  Score=142.80  Aligned_cols=152  Identities=18%  Similarity=0.251  Sum_probs=120.0

Q ss_pred             cchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCCcEEEEe---
Q psy450           28 RYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---   94 (478)
Q Consensus        28 ~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---   94 (478)
                      ....++.+|. .++..+|+||||||+|+++..+          ..+.++..+|+....         .....++||+   
T Consensus        98 ~~~~~~~~~~-~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~---------~~~~~v~vi~~tn  167 (297)
T 3b9p_A           98 GEKLVRALFA-VARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGN---------PDGDRIVVLAATN  167 (297)
T ss_dssp             HHHHHHHHHH-HHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC---------------CEEEEEEES
T ss_pred             HHHHHHHHHH-HHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhccccc---------CCCCcEEEEeecC
Confidence            3447888998 8999999999999999998653          456677777754221         1234577777   


Q ss_pred             ----eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhc
Q psy450           95 ----IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQG  170 (478)
Q Consensus        95 ----ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~  170 (478)
                          +|++++|||+..+++++|+.++|.+||+.++...+  ...+.+.++.++..+.||+++++..+|++|+..++++..
T Consensus       168 ~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~--~~~~~~~~~~la~~~~g~~~~~l~~l~~~a~~~a~r~~~  245 (297)
T 3b9p_A          168 RPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQG--SPLDTEALRRLAKITDGYSGSDLTALAKDAALEPIRELN  245 (297)
T ss_dssp             CGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGS--CCSCHHHHHHHHHHTTTCCHHHHHHHHHHHTTHHHHTCC
T ss_pred             ChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHh
Confidence                89999999999999999999999999999998763  233444459999999999999999999999998876421


Q ss_pred             ---------CCCCCCCHHHHHHHHHHhhhh
Q psy450          171 ---------INKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       171 ---------~~~~~it~~d~~~a~~~~~~~  191 (478)
                               .....|+.+||..|+..++|+
T Consensus       246 ~~~~~~~~~~~~~~i~~~d~~~a~~~~~~s  275 (297)
T 3b9p_A          246 VEQVKCLDISAMRAITEQDFHSSLKRIRRS  275 (297)
T ss_dssp             --------CCCCCCCCHHHHHHHTTSCCCS
T ss_pred             hhhcccccccccCCcCHHHHHHHHHHcCCC
Confidence                     124679999999998877654

>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=99.60  E-value=8.4e-15  Score=145.15  Aligned_cols=206  Identities=16%  Similarity=0.125  Sum_probs=135.1

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC------CcEEEEechhhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR------MNFLAVKGPELLNKY  274 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~------~~~~~v~~~~l~~~~  274 (478)
                      +.+.+|++++|.+++++.+...+...      ...+++|+||||||||++++++++.++      ..++.+++++...  
T Consensus        31 ~~p~~~~~i~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~--  102 (353)
T 1sxj_D           31 YRPKNLDEVTAQDHAVTVLKKTLKSA------NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERG--  102 (353)
T ss_dssp             TCCSSTTTCCSCCTTHHHHHHHTTCT------TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCC--
T ss_pred             cCCCCHHHhhCCHHHHHHHHHHHhcC------CCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccc--
Confidence            45667999999999998887765422      134599999999999999999998864      4577887765311  


Q ss_pred             hcchHHHHHHHHHHhH----------------hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCC
Q psy450          275 IGQSEENIRNVFLKAR----------------SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD  338 (478)
Q Consensus       275 ~g~~~~~~~~~~~~a~----------------~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  338 (478)
                          ...++..+....                ...+.||+|||+|.+.+             ...+.|+..++..  ..+
T Consensus       103 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~-------------~~~~~Ll~~le~~--~~~  163 (353)
T 1sxj_D          103 ----ISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTA-------------DAQSALRRTMETY--SGV  163 (353)
T ss_dssp             ----HHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCH-------------HHHHHHHHHHHHT--TTT
T ss_pred             ----hHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCH-------------HHHHHHHHHHHhc--CCC
Confidence                111222111111                13457999999999863             3345666666643  335


Q ss_pred             eEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHH
Q psy450          339 VFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSN  417 (478)
Q Consensus       339 v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~  417 (478)
                      ..+|.++|.+..+++++++  |+. .+.++. ++.++...+++..+...++.-+ ..+..++..+ .| +.+.+.++++.
T Consensus       164 ~~~il~~~~~~~l~~~l~s--R~~-~i~~~~-~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~-~G-~~r~~~~~l~~  237 (353)
T 1sxj_D          164 TRFCLICNYVTRIIDPLAS--QCS-KFRFKA-LDASNAIDRLRFISEQENVKCDDGVLERILDIS-AG-DLRRGITLLQS  237 (353)
T ss_dssp             EEEEEEESCGGGSCHHHHH--HSE-EEECCC-CCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHT-SS-CHHHHHHHHHH
T ss_pred             ceEEEEeCchhhCcchhhc--cCc-eEEeCC-CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHc-CC-CHHHHHHHHHH
Confidence            6677788999999999998  885 777775 6888888899887765443222 2366677665 44 34445555555


Q ss_pred             HHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          418 AWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       418 a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      ++..+-+..         ....||.+|+.++
T Consensus       238 ~~~~~~~~~---------~~~~It~~~v~~~  259 (353)
T 1sxj_D          238 ASKGAQYLG---------DGKNITSTQVEEL  259 (353)
T ss_dssp             THHHHHHHC---------SCCCCCHHHHHHH
T ss_pred             HHHhcCCCc---------cCccccHHHHHHH
Confidence            543322110         1125888888887

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.59  E-value=8.7e-15  Score=140.37  Aligned_cols=138  Identities=15%  Similarity=0.195  Sum_probs=113.4

Q ss_pred             chhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhccCCCcEEEEe-
Q psy450           29 YHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-   94 (478)
Q Consensus        29 ~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-   94 (478)
                      ..+++.+|+ .++...|+++|+||+|.++..+             .++.++.++++.            .....++++| 
T Consensus       118 ~~~i~~~~~-~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg------------~~~~~~i~~a~  184 (278)
T 1iy2_A          118 AARVRDLFE-TAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGF------------EKDTAIVVMAA  184 (278)
T ss_dssp             HHHHHHHHH-HHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTC------------CTTCCEEEEEE
T ss_pred             HHHHHHHHH-HHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCC------------CCCCCEEEEEe
Confidence            457888998 8887889999999999987532             456667667642            3344577777 


Q ss_pred             ------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHH
Q psy450           95 ------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKM  166 (478)
Q Consensus        95 ------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~  166 (478)
                            +||+++|  ||++.|+|+.|+.++|.+||+.+++..  ++..+.++ ..++..++|++|+||+.++++|+..+.
T Consensus       185 t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~--~~~~~~~~-~~la~~~~G~~~~dl~~l~~~a~~~a~  261 (278)
T 1iy2_A          185 TNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGK--PLAEDVDL-ALLAKRTPGFVGADLENLLNEAALLAA  261 (278)
T ss_dssp             ESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTS--CBCTTCCH-HHHHHTCTTCCHHHHHHHHHHHHHHHH
T ss_pred             cCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccC--CCCcccCH-HHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence                  9999999  999999999999999999999998766  55666776 899999999999999999999998887


Q ss_pred             HhhcCCCCCCCHHHHHHHH
Q psy450          167 LKQGINKRDLQKEDFQQIY  185 (478)
Q Consensus       167 ~~~~~~~~~it~~d~~~a~  185 (478)
                      .+   +...|+.+|+..++
T Consensus       262 ~~---~~~~I~~~dl~~a~  277 (278)
T 1iy2_A          262 RE---GRRKITMKDLEEAA  277 (278)
T ss_dssp             HT---TCCSBCHHHHHHHT
T ss_pred             Hh---CCCCcCHHHHHHHh
Confidence            54   45679999998775

>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=99.58  E-value=4.4e-14  Score=138.29  Aligned_cols=189  Identities=20%  Similarity=0.178  Sum_probs=126.3

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC-----CcEEEEechhhhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR-----MNFLAVKGPELLNKYI  275 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~-----~~~~~v~~~~l~~~~~  275 (478)
                      +.+.+|++++|++.+++.+...+...      ...+++|+||||||||++|+++++.+.     ..++.+++++..+.  
T Consensus        19 ~~p~~~~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~--   90 (327)
T 1iqp_A           19 YRPQRLDDIVGQEHIVKRLKHYVKTG------SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGI--   90 (327)
T ss_dssp             TCCCSTTTCCSCHHHHHHHHHHHHHT------CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHH--
T ss_pred             cCCCCHHHhhCCHHHHHHHHHHHHcC------CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCch--
Confidence            45667999999999999998776542      133599999999999999999999863     34777877654221  


Q ss_pred             cchHHHHHHHHHHh--HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCc
Q psy450          276 GQSEENIRNVFLKA--RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDP  353 (478)
Q Consensus       276 g~~~~~~~~~~~~a--~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~  353 (478)
                      ......+.......  ....+.+++|||+|.+.+             ...+.|+..++.  ...++.+|+++|.+..+.+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-------------~~~~~L~~~le~--~~~~~~~i~~~~~~~~l~~  155 (327)
T 1iqp_A           91 NVIREKVKEFARTKPIGGASFKIIFLDEADALTQ-------------DAQQALRRTMEM--FSSNVRFILSCNYSSKIIE  155 (327)
T ss_dssp             HTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCH-------------HHHHHHHHHHHH--TTTTEEEEEEESCGGGSCH
T ss_pred             HHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCH-------------HHHHHHHHHHHh--cCCCCeEEEEeCCccccCH
Confidence            11111122211110  114578999999999862             345666666664  2456788889999999999


Q ss_pred             cccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHH
Q psy450          354 AILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNA  418 (478)
Q Consensus       354 ~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a  418 (478)
                      .+.+  |+. .+.++. ++.++...+++..++..++.-+ ..+..++..+ .| +.+.+.++++.+
T Consensus       156 ~l~s--r~~-~~~~~~-l~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~-~g-~~r~~~~~l~~~  215 (327)
T 1iqp_A          156 PIQS--RCA-IFRFRP-LRDEDIAKRLRYIAENEGLELTEEGLQAILYIA-EG-DMRRAINILQAA  215 (327)
T ss_dssp             HHHH--TEE-EEECCC-CCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHH-TT-CHHHHHHHHHHH
T ss_pred             HHHh--hCc-EEEecC-CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHC-CC-CHHHHHHHHHHH
Confidence            9998  886 677775 6888998999888776554322 2255666655 33 334444444433

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.58  E-value=9.8e-15  Score=146.91  Aligned_cols=156  Identities=18%  Similarity=0.255  Sum_probs=118.6

Q ss_pred             hhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCCcEE
Q psy450           22 NYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKK   91 (478)
Q Consensus        22 ~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~   91 (478)
                      .|.+... ..++.+|+ .++..+|+||||||+|.++..+          .++.++..||+...          .....|+
T Consensus       187 ~~~g~~~-~~~~~~~~-~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~----------~~~~~v~  254 (389)
T 3vfd_A          187 KYVGEGE-KLVRALFA-VARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQS----------AGDDRVL  254 (389)
T ss_dssp             -----CH-HHHHHHHH-HHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC---------------CEE
T ss_pred             cccchHH-HHHHHHHH-HHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccc----------cCCCCEE
Confidence            3444443 47899999 9999999999999999997654          56677777775421          2245688


Q ss_pred             EEe-------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHH
Q psy450           92 LVL-------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKN  164 (478)
Q Consensus        92 via-------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~  164 (478)
                      |||       +|++++|||+..++|+.|+.++|.+||+.++...+.  ..+.+.+..++..++||+++++..+++.|+..
T Consensus       255 vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~--~l~~~~~~~la~~~~g~~~~~l~~L~~~a~~~  332 (389)
T 3vfd_A          255 VMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGS--PLTQKELAQLARMTDGYSGSDLTALAKDAALG  332 (389)
T ss_dssp             EEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCC--CSCHHHHHHHHHHTTTCCHHHHHHHHHHHTTH
T ss_pred             EEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            887       999999999999999999999999999999977633  33444559999999999999999999999998


Q ss_pred             HHHhh---------cCCCCCCCHHHHHHHHHHhhhh
Q psy450          165 KMLKQ---------GINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       165 a~~~~---------~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      ++++.         ......|+.+||..++....++
T Consensus       333 ~~rel~~~~~~~~~~~~~~~i~~~d~~~al~~~~~s  368 (389)
T 3vfd_A          333 PIRELKPEQVKNMSASEMRNIRLSDFTESLKKIKRS  368 (389)
T ss_dssp             HHHTSCCC---CCSSSCCCCCCHHHHHHHHHHCCCS
T ss_pred             HHHhhhhhhhhccchhhcCCcCHHHHHHHHHHcCCC
Confidence            87651         1234679999999999877543

>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=99.58  E-value=1.6e-14  Score=140.92  Aligned_cols=177  Identities=21%  Similarity=0.219  Sum_probs=122.7

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELLNK  273 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~~~  273 (478)
                      ..+.+.+|++++|++.+++.+...+..     +. ..+++|+||||||||++|+++++.+     +.+++.+++++..+ 
T Consensus         9 ~k~~p~~~~~~~g~~~~~~~l~~~l~~-----~~-~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~-   81 (319)
T 2chq_A            9 EKYRPRTLDEVVGQDEVIQRLKGYVER-----KN-IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERG-   81 (319)
T ss_dssp             TTTSCSSGGGSCSCHHHHHHHHTTTTT-----TC-CCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTC-
T ss_pred             HhcCCCCHHHHhCCHHHHHHHHHHHhC-----CC-CCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccC-
Confidence            345667899999999999988876543     21 3349999999999999999999986     34578888765422 


Q ss_pred             hhcchHHHHHHHHHHh--HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCC
Q psy450          274 YIGQSEENIRNVFLKA--RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLL  351 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a--~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~l  351 (478)
                       .......+.......  ....+.+++|||+|.+..             ...+.|+..++.  ...++.+|++||.+..+
T Consensus        82 -~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~-------------~~~~~L~~~le~--~~~~~~~i~~~~~~~~l  145 (319)
T 2chq_A           82 -IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTA-------------DAQAALRRTMEM--YSKSCRFILSCNYVSRI  145 (319)
T ss_dssp             -TTTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCH-------------HHHHTTGGGTSS--SSSSEEEEEEESCGGGS
T ss_pred             -hHHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCH-------------HHHHHHHHHHHh--cCCCCeEEEEeCChhhc
Confidence             111122222222111  124578999999999862             345666667764  34568889999999999


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhc
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHF  402 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~  402 (478)
                      .+++.+  |+. .+.++. ++.++...+++..+++.++.-+ ..+..++..+
T Consensus       146 ~~~l~s--r~~-~i~~~~-~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~  193 (319)
T 2chq_A          146 IEPIQS--RCA-VFRFKP-VPKEAMKKRLLEICEKEGVKITEDGLEALIYIS  193 (319)
T ss_dssp             CHHHHT--TCE-EEECCC-CCHHHHHHHHHHHHHTTCCCBCHHHHHHHHHTT
T ss_pred             chHHHh--hCe-EEEecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Confidence            999999  885 778875 6888999999888876554322 1255555543

>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=99.58  E-value=3.4e-16  Score=149.35  Aligned_cols=147  Identities=12%  Similarity=0.192  Sum_probs=119.0

Q ss_pred             chhhhhHHHHhhhhcCCCeEEEecccccccch--------------hhHhhhccccccccccccchhhhccCCCcEEEEe
Q psy450           29 YHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK--------------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL   94 (478)
Q Consensus        29 ~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r--------------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via   94 (478)
                      ...++.+|+ .++..+|+||||||+|.+...+              .++.++..+|+..           .....|+||+
T Consensus        89 ~~~~~~~~~-~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~~v~vi~  156 (268)
T 2r62_A           89 ASRVRDLFE-TAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFG-----------SENAPVIVLA  156 (268)
T ss_dssp             SSSSSTTHH-HHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSS-----------CSCSCCEEEE
T ss_pred             HHHHHHHHH-HHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcc-----------cCCCCEEEEE
Confidence            347889999 9998999999999999998764              4667777777532           1234577777


Q ss_pred             -------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHH
Q psy450           95 -------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNK  165 (478)
Q Consensus        95 -------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a  165 (478)
                             +|++++|  ||+..++|+.|+.++|.+||+.+++..  .+..+.++ +.++..+.||+|+|++.+++.|+..+
T Consensus       157 ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~--~~~~~~~~-~~la~~~~g~~g~dl~~l~~~a~~~a  233 (268)
T 2r62_A          157 ATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGV--KLANDVNL-QEVAKLTAGLAGADLANIINEAALLA  233 (268)
T ss_dssp             CBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSS--CCCSSCCT-TTTTSSSCSSCHHHHHHHHHHHHHTT
T ss_pred             ecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcC--CCCCccCH-HHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence                   8999999  999999999999999999999999776  44556666 88999999999999999999999877


Q ss_pred             HHhhcCCCCCCCHHHHHHHHHHhhhhcc
Q psy450          166 MLKQGINKRDLQKEDFQQIYDDLQSRYS  193 (478)
Q Consensus       166 ~~~~~~~~~~it~~d~~~a~~~~~~~~~  193 (478)
                      ..+   +...|+.+|+..++....++..
T Consensus       234 ~~~---~~~~i~~~~~~~a~~~~~~~~~  258 (268)
T 2r62_A          234 GRN---NQKEVRQQHLKEAVERGIAGLE  258 (268)
T ss_dssp             SSS---CCCSCCHHHHHTSCTTCCCCCC
T ss_pred             HHh---ccCCcCHHHHHHHHHHHhhcch
Confidence            532   4568999999888887765543

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.57  E-value=8.4e-15  Score=150.65  Aligned_cols=204  Identities=17%  Similarity=0.173  Sum_probs=121.3

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC--cEEEEech-----hhhhhhhcchHH
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM--NFLAVKGP-----ELLNKYIGQSEE  280 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~--~~~~v~~~-----~l~~~~~g~~~~  280 (478)
                      .++|++.++..+...+..        ..++||+||||||||++|+++++.++.  ++..+.+.     ++.+.+.+....
T Consensus        23 ~ivGq~~~i~~l~~al~~--------~~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~~t~~dL~G~~~~~~~~   94 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALS--------GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQALK   94 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHH--------TCEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTTCCHHHHHCCBC-----
T ss_pred             hhHHHHHHHHHHHHHHhc--------CCeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhcCCHHHhcCcccHHHHh
Confidence            468999888777654432        457999999999999999999998843  55555543     222211111110


Q ss_pred             HHHHHHHHhHhC---CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC--------CCCCeEEEEEcCCCC
Q psy450          281 NIRNVFLKARSA---APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH--------TSQDVFILGATNRVD  349 (478)
Q Consensus       281 ~~~~~~~~a~~~---~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~~~v~vI~ttn~~~  349 (478)
                       -...|..+..+   .++|+|||||+.+.             ..+.+.|+..|+.-.        ..+..++|++||.+.
T Consensus        95 -~~g~~~~~~~g~l~~~~IL~IDEI~r~~-------------~~~q~~LL~~lee~~v~i~G~~~~~~~~~iI~ATN~lp  160 (500)
T 3nbx_X           95 -DEGRYERLTSGYLPEAEIVFLDEIWKAG-------------PAILNTLLTAINERQFRNGAHVEKIPMRLLVAASNELP  160 (500)
T ss_dssp             ------CBCCTTSGGGCSEEEEESGGGCC-------------HHHHHHHHHHHHSSEEECSSSEEECCCCEEEEEESSCC
T ss_pred             -hchhHHhhhccCCCcceeeeHHhHhhhc-------------HHHHHHHHHHHHHHhccCCCCcCCcchhhhhhccccCC
Confidence             11223222222   46799999998765             356677777775311        112234677777532


Q ss_pred             C---CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHh-------------------------cCCCCCCCCHHHHHHh
Q psy450          350 L---LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVR-------------------------KFKLSDDVSLDSLVHH  401 (478)
Q Consensus       350 ~---ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~-------------------------~~~~~~~~~~~~la~~  401 (478)
                      .   +.+++++  ||...+.++.|...+++..|++....                         +..+++++ .+.++..
T Consensus       161 e~~~~~~aLld--RF~~~i~v~~p~~~ee~~~IL~~~~~~~~~~~~~~~~~~~e~l~~~~~~~~~v~v~d~v-~e~i~~l  237 (500)
T 3nbx_X          161 EADSSLEALYD--RMLIRLWLDKVQDKANFRSMLTSQQDENDNPVPDALQVTDEEYERWQKEIGEITLPDHV-FELIFML  237 (500)
T ss_dssp             CTTCTTHHHHT--TCCEEEECCSCCCHHHHHHHHTCCCCTTSCCSCTTTSBCHHHHHHHHHHHTTCBCCHHH-HHHHHHH
T ss_pred             CccccHHHHHH--HHHHHHHHHHhhhhhhHHHHHhcccccCCCCCCccceecHHHHHHHHhcCCcccCchHH-HHHHHHH
Confidence            2   3458898  99999999986556888888865432                         11111111 2223322


Q ss_pred             c--------CCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHH
Q psy450          402 F--------PSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFL  446 (478)
Q Consensus       402 ~--------~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~  446 (478)
                      .        ..+.+++....+++.|...|..+.          ...|+.+|+.
T Consensus       238 ~~~lr~~r~~~~iS~R~~~~llr~A~A~A~l~g----------r~~Vt~eDv~  280 (500)
T 3nbx_X          238 RQQLDKLPDAPYVSDRRWKKAIRLLQASAFFSG----------RSAVAPVDLI  280 (500)
T ss_dssp             HHHHHHCSSSCCCCHHHHHHHHHHHHHHHHHTT----------CSBCCGGGGG
T ss_pred             HHHhhcCCCCCccchhHHHHHHHHHHHHHhhcC----------CccccchHHH
Confidence            2        236778877777777765555443          4467888887

>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=99.57  E-value=6.7e-14  Score=139.73  Aligned_cols=202  Identities=18%  Similarity=0.205  Sum_probs=139.1

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc-------------------
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN-------------------  261 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~-------------------  261 (478)
                      +.+..|++++|.+.+++.+...+..     +..++.++|+||+|||||++++++++.++..                   
T Consensus        10 ~rp~~~~~~vg~~~~~~~L~~~l~~-----~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~   84 (373)
T 1jr3_A           10 WRPQTFADVVGQEHVLTALANGLSL-----GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQ   84 (373)
T ss_dssp             TCCCSTTTSCSCHHHHHHHHHHHHH-----TCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHT
T ss_pred             hCCCchhhccCcHHHHHHHHHHHHh-----CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhc
Confidence            3445789999999999999887753     2235678999999999999999999988542                   


Q ss_pred             -----EEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC
Q psy450          262 -----FLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG  332 (478)
Q Consensus       262 -----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~  332 (478)
                           ++.++...      ......++.++..+.    ...+.||+|||+|.+.             ....+.|+..++.
T Consensus        85 ~~~~~~~~~~~~~------~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~-------------~~~~~~Ll~~le~  145 (373)
T 1jr3_A           85 GRFVDLIEIDAAS------RTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLS-------------RHSFNALLKTLEE  145 (373)
T ss_dssp             SCCSSCEEEETTC------SCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSC-------------HHHHHHHHHHHHS
T ss_pred             cCCCceEEecccc------cCCHHHHHHHHHHHhhccccCCeEEEEEECcchhc-------------HHHHHHHHHHHhc
Confidence                 23332211      011223555665554    2346899999999986             2455677777774


Q ss_pred             CCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHH
Q psy450          333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADI  411 (478)
Q Consensus       333 ~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di  411 (478)
                        ...++++|++|+.+..+.+.+++  |+ ..+.++. ++.++...+++..++..++..+. .+..++..+ +| +.+++
T Consensus       146 --~~~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~-l~~~~~~~~l~~~~~~~~~~~~~~a~~~l~~~~-~G-~~r~~  217 (373)
T 1jr3_A          146 --PPEHVKFLLATTDPQKLPVTILS--RC-LQFHLKA-LDVEQIRHQLEHILNEEHIAHEPRALQLLARAA-EG-SLRDA  217 (373)
T ss_dssp             --CCSSEEEEEEESCGGGSCHHHHT--TS-EEEECCC-CCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHS-SS-CHHHH
T ss_pred             --CCCceEEEEEeCChHhCcHHHHh--he-eEeeCCC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHC-CC-CHHHH
Confidence              34578888889988889999998  87 6778875 78999999998888665543222 255667665 44 55667


Q ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          412 YSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       412 ~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      .+++..+...+              ...||.+++.++
T Consensus       218 ~~~l~~~~~~~--------------~~~i~~~~v~~~  240 (373)
T 1jr3_A          218 LSLTDQAIASG--------------DGQVSTQAVSAM  240 (373)
T ss_dssp             HHHHHHHHHHT--------------TTCBCHHHHHHH
T ss_pred             HHHHHHHHHhc--------------CCcccHHHHHHH
Confidence            67666554211              124777777766

>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=99.55  E-value=5.2e-14  Score=137.51  Aligned_cols=185  Identities=16%  Similarity=0.130  Sum_probs=127.4

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELLNKYI  275 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~~~~~  275 (478)
                      ..+..|++++|.+.+++.+...+..     +..+ +++|+||||+|||++|+++++.+     +.+++.+++++..    
T Consensus        15 ~~p~~~~~~~g~~~~~~~l~~~l~~-----~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~----   84 (323)
T 1sxj_B           15 YRPQVLSDIVGNKETIDRLQQIAKD-----GNMP-HMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDR----   84 (323)
T ss_dssp             TCCSSGGGCCSCTHHHHHHHHHHHS-----CCCC-CEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCC----
T ss_pred             cCCCCHHHHHCCHHHHHHHHHHHHc-----CCCC-eEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCcccc----
Confidence            4456789999999999998887643     2223 39999999999999999999986     3457777765421    


Q ss_pred             cchHHHHHHHHHHhH-------hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          276 GQSEENIRNVFLKAR-------SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       276 g~~~~~~~~~~~~a~-------~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                        ....++..+....       ...+.+|+|||+|.+..             ...+.|+..++.  ...++.+|++||.+
T Consensus        85 --~~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-------------~~~~~L~~~le~--~~~~~~~il~~~~~  147 (323)
T 1sxj_B           85 --GIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA-------------GAQQALRRTMEL--YSNSTRFAFACNQS  147 (323)
T ss_dssp             --SHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCH-------------HHHHTTHHHHHH--TTTTEEEEEEESCG
T ss_pred             --ChHHHHHHHHHHHhccccCCCCCceEEEEECcccCCH-------------HHHHHHHHHHhc--cCCCceEEEEeCCh
Confidence              2334455554443       33478999999999862             234556666653  24567788889999


Q ss_pred             CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHH
Q psy450          349 DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNA  418 (478)
Q Consensus       349 ~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a  418 (478)
                      ..+.+.+++  |+. .+.++. ++.++...+++..++..++.-+ ..+..++..+ .| +.+.+.+++..+
T Consensus       148 ~~l~~~l~s--r~~-~i~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~-~G-~~r~a~~~l~~~  212 (323)
T 1sxj_B          148 NKIIEPLQS--QCA-ILRYSK-LSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTA-EG-DMRQAINNLQST  212 (323)
T ss_dssp             GGSCHHHHT--TSE-EEECCC-CCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHH-TT-CHHHHHHHHHHH
T ss_pred             hhchhHHHh--hce-EEeecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CC-CHHHHHHHHHHH
Confidence            999999998  875 778875 7899999999887765443322 2255666665 33 333444444443

>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=99.53  E-value=1.1e-13  Score=131.57  Aligned_cols=193  Identities=19%  Similarity=0.166  Sum_probs=110.0

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEechhhhhh-----hh
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR---MNFLAVKGPELLNK-----YI  275 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~~~~l~~~-----~~  275 (478)
                      .+|++++|.+...+.+.+.+......    +.++||+||||||||++|+++++.+.   .+++.++|+.+...     ..
T Consensus         3 ~~f~~~ig~~~~~~~~~~~~~~~~~~----~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~~~~~~~l~   78 (265)
T 2bjv_A            3 EYKDNLLGEANSFLEVLEQVSHLAPL----DKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELF   78 (265)
T ss_dssp             -------CCCHHHHHHHHHHHHHTTS----CSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCHHHHHHHHH
T ss_pred             cccccceeCCHHHHHHHHHHHHHhCC----CCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCChhHHHHHhc
Confidence            46889999999988888777665332    46799999999999999999999874   68999999876322     11


Q ss_pred             cchHHH-------HHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCe
Q psy450          276 GQSEEN-------IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDV  339 (478)
Q Consensus       276 g~~~~~-------~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v  339 (478)
                      |.....       ....+..+   .+++|||||+|.+..             .....|+..++...         ...++
T Consensus        79 g~~~~~~~g~~~~~~~~l~~a---~~~~l~lDEi~~l~~-------------~~q~~Ll~~l~~~~~~~~g~~~~~~~~~  142 (265)
T 2bjv_A           79 GHEAGAFTGAQKRHPGRFERA---DGGTLFLDELATAPM-------------MVQEKLLRVIEYGELERVGGSQPLQVNV  142 (265)
T ss_dssp             CCC---------CCCCHHHHT---TTSEEEEESGGGSCH-------------HHHHHHHHHHHHCEECCCCC--CEECCC
T ss_pred             CCcccccccccccccchhhhc---CCcEEEEechHhcCH-------------HHHHHHHHHHHhCCeecCCCcccccCCe
Confidence            211100       01122222   346999999999863             33445555554210         12357


Q ss_pred             EEEEEcCCC-------CCCCccccCCCCCCeEEEeCCCCCH---HHHHHHHHHHHh----cCCCCC--CCC---HHHHHH
Q psy450          340 FILGATNRV-------DLLDPAILRPGRLDKSLYVGLYEDR---ISQLGVLKAVVR----KFKLSD--DVS---LDSLVH  400 (478)
Q Consensus       340 ~vI~ttn~~-------~~ld~~l~~~~Rf~~~i~~~~pp~~---~~r~~il~~~~~----~~~~~~--~~~---~~~la~  400 (478)
                      .+|+|||.+       ..+.+.+.+  ||.. +.+.+||-.   ++...+++.+++    ..+...  ..+   +..+..
T Consensus       143 ~iI~atn~~~~~~~~~~~~~~~L~~--Rl~~-~~i~lp~L~~R~~di~~l~~~~l~~~~~~~~~~~~~~~~~~a~~~L~~  219 (265)
T 2bjv_A          143 RLVCATNADLPAMVNEGTFRADLLD--ALAF-DVVQLPPLRERESDIMLMAEYFAIQMCREIKLPLFPGFTERARETLLN  219 (265)
T ss_dssp             EEEEEESSCHHHHHHHTSSCHHHHH--HHCS-EEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCSSCCCBCHHHHHHHHH
T ss_pred             EEEEecCcCHHHHHHcCCccHHHHH--hhcC-cEEeCCChhhhhHHHHHHHHHHHHHHHHHhCCCcccCcCHHHHHHHHh
Confidence            899999985       246788887  8863 334443333   344445444433    233211  222   233333


Q ss_pred             hcCCCCCHHHHHHHHHHHHH
Q psy450          401 HFPSQMSGADIYSICSNAWT  420 (478)
Q Consensus       401 ~~~~~~sg~di~~l~~~a~~  420 (478)
                      .. -..+.+++.++++.++.
T Consensus       220 ~~-~~gn~reL~~~l~~~~~  238 (265)
T 2bjv_A          220 YR-WPGNIRELKNVVERSVY  238 (265)
T ss_dssp             SC-CTTHHHHHHHHHHHHHH
T ss_pred             CC-CCCCHHHHHHHHHHHHH
Confidence            21 11234577777777654

>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=99.53  E-value=8.5e-16  Score=157.79  Aligned_cols=276  Identities=13%  Similarity=0.051  Sum_probs=153.7

Q ss_pred             HhhccCccchhhhhHHHHhh---hhcCCCeEEEecccccccchhhH--------------hhhc------------cccc
Q psy450           21 TNYFATPRYHHLNDIVKINL---KKYNLDIFKYDEVNYLCNVKYVY--------------FKLC------------SFDS   71 (478)
Q Consensus        21 ~~~~~~~~~~~~~~if~~~a---~~~~p~ilfiDe~d~i~~~r~~~--------------~~l~------------~~d~   71 (478)
                      ++|.+++ + .++.+|+ .|   +..+||||||||+|+++++|.-+              ++++            .+|.
T Consensus       103 ~~~~~~~-~-~~~~~f~-~a~~~~~~~~~il~iDEid~l~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ll~~  179 (456)
T 2c9o_A          103 STEIKKT-E-VLMENFR-RAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFES  179 (456)
T ss_dssp             CSSSCHH-H-HHHHHHH-HTEEEEEEEEEEEEEEEEEEEEEC--------------CEEEEEEETTEEEEEEECHHHHHH
T ss_pred             HHhhhhh-H-HHHHHHH-HHHhhhhcCCcEEEEechhhcccccCCCCCCCcchHHHHHHHHHhccccchhHhhhHHHHHH
Confidence            3444443 3 3889998 88   78899999999999999887211              1111            1111


Q ss_pred             cccccccchhhhccCCCcEEEEe-------eCHhHHh--cccc--EEEeCCCC--HHHHHHHHHHHHhhcCCCCCCChhH
Q psy450           72 VNVKSNETKDQQCKQQHKKKLVL-------IRKQIQK--LFLK--TINVLPLT--EPERRLLIQYQLDCLGGDYGFDASL  138 (478)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~v~via-------ld~al~r--Rf~~--~i~~~~P~--~~~r~~il~~~~~~~~~~~~~~~~~  138 (478)
                      +.       ..+...++.|+|+|       +|+++.|  |||+  .++++.|+  .++|.+|++.++.         .++
T Consensus       180 l~-------~~~~~~~~~v~i~attn~~~~ld~a~~r~~rfd~~~~~~v~~p~~~~~~R~~il~~~~~---------~dl  243 (456)
T 2c9o_A          180 LQ-------KERVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVHKKKEIIQDVTL---------HDL  243 (456)
T ss_dssp             HH-------HTTCCTTEEEEEETTTCCEEEEEEETTSCCTTSCSSSSEECCCCSCSEEEEEEEEEEEH---------HHH
T ss_pred             Hh-------hccCCCCCEEEEEcCCCCcccCChhhcCCcccCcceeEecCCCchhHHHHHHHHHHHHH---------HHH
Confidence            00       01223333344445       9999988  9999  67788885  4788888876552         255


Q ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhcccCCCCCCCCCCCcccccCcHHHHHH
Q psy450          139 VEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAE  218 (478)
Q Consensus       139 i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~  218 (478)
                       +.++..|+|  |+|+..+|.....-.       ...+..                                   ...+.
T Consensus       244 -~~~a~~t~g--gadl~~l~~~i~~p~-------~~~I~~-----------------------------------~lr~~  278 (456)
T 2c9o_A          244 -DVANARPQG--GQDILSMMGQLMKPK-------KTEITD-----------------------------------KLRGE  278 (456)
T ss_dssp             -HHTC-------------------------------------------------------------------------CH
T ss_pred             -HHHHHhCCC--hhHHHHHHhhhcccc-------hhhHHH-----------------------------------HHHHH
Confidence             999999999  999999875311000       000000                                   00000


Q ss_pred             HHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhH-hCCCeEE
Q psy450          219 ILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR-SAAPCVV  297 (478)
Q Consensus       219 l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~-~~~p~il  297 (478)
                      +..                                                           .+...+.... ...|.|+
T Consensus       279 I~~-----------------------------------------------------------~l~~~~~~g~~~v~~~Vl  299 (456)
T 2c9o_A          279 INK-----------------------------------------------------------VVNKYIDQGIAELVPGVL  299 (456)
T ss_dssp             HHH-----------------------------------------------------------HHHHHHHTTSEEEEECEE
T ss_pred             HHH-----------------------------------------------------------HHHHHHHhccccccceEE
Confidence            000                                                           0011111111 0113599


Q ss_pred             EEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEE---------cC---CCCCCCccccCCCCCCeEE
Q psy450          298 FFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGA---------TN---RVDLLDPAILRPGRLDKSL  365 (478)
Q Consensus       298 ~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~t---------tn---~~~~ld~~l~~~~Rf~~~i  365 (478)
                      +|||+|.|.             ....+.|++.++...  .+++|++|         ++   .|+.+++.+++  ||.. +
T Consensus       300 iIDEa~~l~-------------~~a~~aLlk~lEe~~--~~~~il~tn~~~~~i~~~~~~~~~~~l~~~i~s--R~~~-~  361 (456)
T 2c9o_A          300 FVDEVHMLD-------------IECFTYLHRALESSI--APIVIFASNRGNCVIRGTEDITSPHGIPLDLLD--RVMI-I  361 (456)
T ss_dssp             EEESGGGCB-------------HHHHHHHHHHTTSTT--CCEEEEEECCSEEECBTTSSCEEETTCCHHHHT--TEEE-E
T ss_pred             EEechhhcC-------------HHHHHHHHHHhhccC--CCEEEEecCCccccccccccccccccCChhHHh--hcce-e
Confidence            999999996             467889999998543  34555555         33   26789999999  9977 5


Q ss_pred             EeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHH
Q psy450          366 YVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDD  444 (478)
Q Consensus       366 ~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d  444 (478)
                      .++. ++.++..+|++..+...+..-+. .+..++.... .-+.+....+++.|...|..+.          ...||.+|
T Consensus       362 ~~~~-~~~~e~~~iL~~~~~~~~~~~~~~~~~~i~~~a~-~g~~r~a~~ll~~a~~~A~~~~----------~~~v~~~~  429 (456)
T 2c9o_A          362 RTML-YTPQEMKQIIKIRAQTEGINISEEALNHLGEIGT-KTTLRYSVQLLTPANLLAKING----------KDSIEKEH  429 (456)
T ss_dssp             ECCC-CCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHH-HSCHHHHHHTHHHHHHHHHHTT----------CSSBCHHH
T ss_pred             eCCC-CCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcc-CCCHHHHHHHHHHHHHHHhhcC----------CCccCHHH
Confidence            7774 79999999998877544432221 1444444331 2356666777777766665432          45799999


Q ss_pred             HHhch
Q psy450          445 FLGAC  449 (478)
Q Consensus       445 ~~~A~  449 (478)
                      +.+|+
T Consensus       430 v~~~~  434 (456)
T 2c9o_A          430 VEEIS  434 (456)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99993

>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=99.49  E-value=3.2e-13  Score=133.93  Aligned_cols=191  Identities=15%  Similarity=0.103  Sum_probs=123.5

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC------------------
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM------------------  260 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~------------------  260 (478)
                      ..+.+.+|++++|++.+++.+...+.    ..+..+. ++|+||+|+|||++++++++.+..                  
T Consensus         6 ~kyrP~~~~~~vg~~~~~~~l~~~~~----~~~~~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~   80 (354)
T 1sxj_E            6 DKYRPKSLNALSHNEELTNFLKSLSD----QPRDLPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASN   80 (354)
T ss_dssp             TTTCCCSGGGCCSCHHHHHHHHTTTT----CTTCCCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC-------------
T ss_pred             hccCCCCHHHhcCCHHHHHHHHHHHh----hCCCCCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeeccccc
Confidence            34567789999999999988876541    1222244 999999999999999999996511                  


Q ss_pred             -----------cEEEEechhhhhhhhcchHHHHHHHHHHhH--------------hCCCeEEEEcCCccccCCCCCCCCC
Q psy450          261 -----------NFLAVKGPELLNKYIGQSEENIRNVFLKAR--------------SAAPCVVFFDELDSLAPRRGQEDQS  315 (478)
Q Consensus       261 -----------~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~--------------~~~p~il~iDeid~l~~~~~~~~~~  315 (478)
                                 .++.++..+..    ......++..+..+.              ...|.|++|||++.+.         
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~---------  147 (354)
T 1sxj_E           81 RKLELNVVSSPYHLEITPSDMG----NNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLT---------  147 (354)
T ss_dssp             -----CCEECSSEEEECCC--------CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSC---------
T ss_pred             ccceeeeecccceEEecHhhcC----CcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccC---------
Confidence                       12223222110    011112444444332              2357799999999965         


Q ss_pred             chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCC--CC
Q psy450          316 SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSD--DV  393 (478)
Q Consensus       316 ~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~--~~  393 (478)
                          ....+.++..++..  ..+..+|.+|+.++.+.+.+++  |+ ..+.++. |+.++...+++..++..++.-  +.
T Consensus       148 ----~~~~~~L~~~le~~--~~~~~~Il~t~~~~~l~~~l~s--R~-~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~  217 (354)
T 1sxj_E          148 ----KDAQAALRRTMEKY--SKNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPA-PSDSEISTILSDVVTNERIQLETKD  217 (354)
T ss_dssp             ----HHHHHHHHHHHHHS--TTTEEEEEEESCSCSSCHHHHT--TS-EEEECCC-CCHHHHHHHHHHHHHHHTCEECCSH
T ss_pred             ----HHHHHHHHHHHHhh--cCCCEEEEEeCCHHHHHHHHHh--hc-eEEecCC-cCHHHHHHHHHHHHHHcCCCCCcHH
Confidence                23455666666643  3357888889999999999999  98 7788875 789999999988876554431  23


Q ss_pred             CHHHHHHhcCCCCCHHHHHHHHHHHH
Q psy450          394 SLDSLVHHFPSQMSGADIYSICSNAW  419 (478)
Q Consensus       394 ~~~~la~~~~~~~sg~di~~l~~~a~  419 (478)
                      .+..++..+ .| +.+++.++++.+.
T Consensus       218 ~l~~i~~~~-~G-~~r~a~~~l~~~~  241 (354)
T 1sxj_E          218 ILKRIAQAS-NG-NLRVSLLMLESMA  241 (354)
T ss_dssp             HHHHHHHHH-TT-CHHHHHHHHTHHH
T ss_pred             HHHHHHHHc-CC-CHHHHHHHHHHHH
Confidence            366777765 33 3444445554443

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.47  E-value=1.3e-14  Score=153.06  Aligned_cols=213  Identities=15%  Similarity=0.133  Sum_probs=128.4

Q ss_pred             ccccCcHHHHHHHHHHHHhhhh----hCC-CCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe----chhhhhhhhcc
Q psy450          207 EDIGGLSKLKAEILSTFRGVNR----TSG-LKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK----GPELLNKYIGQ  277 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~----~~~-~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~----~~~l~~~~~g~  277 (478)
                      ..+.|++.+|+.+...+.....    ... ....++||+||||||||++|+++++.++..++...    +..+.......
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~~~~~~  374 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVRE  374 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEEECSSG
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhCCCceecCCCccccccccceeeec
Confidence            4689999988776433221100    000 01237999999999999999999998876654421    12221111100


Q ss_pred             h----HHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-----------CCCCeEEE
Q psy450          278 S----EENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-----------TSQDVFIL  342 (478)
Q Consensus       278 ~----~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~v~vI  342 (478)
                      .    .......+..|   ..+|+||||+|.+.+             .....|+..|+.-.           .+.++.||
T Consensus       375 ~~~g~~~~~~G~l~~A---~~gil~IDEid~l~~-------------~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vI  438 (595)
T 3f9v_A          375 KGTGEYYLEAGALVLA---DGGIAVIDEIDKMRD-------------EDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVI  438 (595)
T ss_dssp             GGTSSCSEEECHHHHH---SSSEECCTTTTCCCS-------------HHHHHHHHHHHSSSEEEESSSSEEEECCCCEEE
T ss_pred             cccccccccCCeeEec---CCCcEEeehhhhCCH-------------hHhhhhHHHHhCCEEEEecCCcEEEecCceEEE
Confidence            0    00000122222   236999999999863             34556666665321           13468899


Q ss_pred             EEcCCCC-------------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCC-------C------------
Q psy450          343 GATNRVD-------------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKL-------S------------  390 (478)
Q Consensus       343 ~ttn~~~-------------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~-------~------------  390 (478)
                      +|||.++             .+++++++  |||..+.+..+|+.+ ...|.+..+.....       +            
T Consensus       439 aatNp~~G~~~~~~~~~~ni~l~~aLl~--RFDl~~~~~~~~~~e-~~~i~~~il~~~~~~~~~~~l~~~~l~~~i~~ar  515 (595)
T 3f9v_A          439 AAGNPKFGRYISERPVSDNINLPPTILS--RFDLIFILKDQPGEQ-DRELANYILDVHSGKSTKNIIDIDTLRKYIAYAR  515 (595)
T ss_dssp             EEECCTTCCSCTTSCSCTTTCSCSSSGG--GCSCCEEECCTTHHH-HHHHHHHHHTTTCCCSSSSTTCCTTTHHHHHHHH
T ss_pred             EEcCCcCCccCcccCchhccCCCHHHHh--hCeEEEEeCCCCCHH-HHHHHHHHHHHhhccccccCCCHHHHHHHHHHHH
Confidence            9999986             89999999  998666555446777 77777776653220       0            


Q ss_pred             -------CCCCHHHHHHhc-------------CCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          391 -------DDVSLDSLVHHF-------------PSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       391 -------~~~~~~~la~~~-------------~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                             .+...+.+...+             +.+.|.+.+.++++.|...|..+.          ...|+.+|+.+|
T Consensus       516 ~~~~p~ls~ea~~~l~~~y~~lR~~~~~~~~~~~~~s~R~l~~lirla~a~A~l~~----------~~~V~~~dv~~A  583 (595)
T 3f9v_A          516 KYVTPKITSEAKNLITDFFVEMRKKSSETPDSPILITPRQLEALIRISEAYAKMAL----------KAEVTREDAERA  583 (595)
T ss_dssp             HHHCCCCCCCTHHHHHHHHTTSSCSCCBCSSSCBCSSTTTTTHHHHHHHHHHHTTS----------SCCSSHHHHHHH
T ss_pred             HhCCCCCCHHHHHHHHHHHHHHHHhhccCCCccccccHHHHHHHHHHHHHHHHHhC----------cCCCCHHHHHHH
Confidence                   111133333331             125677778888887775554432          557999999999

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.46  E-value=1e-13  Score=134.54  Aligned_cols=190  Identities=19%  Similarity=0.262  Sum_probs=113.1

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-----hhcch
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-----YIGQS  278 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-----~~g~~  278 (478)
                      ++++|.+...+.+.+.+......    +.++||+||||||||++|+++++..   +.+|+.++|+.+...     ..|..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~----~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~~~lfg~~   77 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPS----DATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLESELFGHE   77 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCST----TSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHHHHHTCCC
T ss_pred             CCcEECCHHHHHHHHHHHHHhCC----CCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHHHHhcCcc
Confidence            35788888888888777665322    5679999999999999999999966   578999998765322     11110


Q ss_pred             H-------HHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCeEEE
Q psy450          279 E-------ENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDVFIL  342 (478)
Q Consensus       279 ~-------~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~vI  342 (478)
                      .       ......|..+.   .++|||||++.+..             .....|+..++...         ...++.||
T Consensus        78 ~g~~tg~~~~~~g~~~~a~---~g~L~LDEi~~l~~-------------~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI  141 (304)
T 1ojl_A           78 KGAFTGADKRREGRFVEAD---GGTLFLDEIGDISP-------------LMQVRLLRAIQEREVQRVGSNQTISVDVRLI  141 (304)
T ss_dssp             SSCCC---CCCCCHHHHHT---TSEEEEESCTTCCH-------------HHHHHHHHHHHSSBCCBTTBCCCCBCCCEEE
T ss_pred             ccccCchhhhhcCHHHhcC---CCEEEEeccccCCH-------------HHHHHHHHHHhcCEeeecCCcccccCCeEEE
Confidence            0       01122344443   35999999999963             34555666655422         12358899


Q ss_pred             EEcCCC-------CCCCccccCCCCCCeEEEeCCCCCH---HHHHHHHHHHHhc----CCCC-CCCC---HHHHHHhcCC
Q psy450          343 GATNRV-------DLLDPAILRPGRLDKSLYVGLYEDR---ISQLGVLKAVVRK----FKLS-DDVS---LDSLVHHFPS  404 (478)
Q Consensus       343 ~ttn~~-------~~ld~~l~~~~Rf~~~i~~~~pp~~---~~r~~il~~~~~~----~~~~-~~~~---~~~la~~~~~  404 (478)
                      ++||.+       ..+.+.+..  ||. .+.+.+||-.   ++...+++.+++.    .+.. ...+   +..+..+. -
T Consensus       142 ~atn~~l~~~v~~g~fr~~L~~--Rl~-~~~i~lPpL~eR~edi~~l~~~~l~~~~~~~~~~~~~~s~~a~~~L~~~~-w  217 (304)
T 1ojl_A          142 AATHRDLAEEVSAGRFRQDLYY--RLN-VVAIEMPSLRQRREDIPLLADHFLRRFAERNRKVVKGFTPQAMDLLIHYD-W  217 (304)
T ss_dssp             EEESSCHHHHHHHTSSCHHHHH--HHS-SEEEECCCSGGGGGGHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHHCC-C
T ss_pred             EecCccHHHHHHhCCcHHHHHh--hcC-eeEEeccCHHHhHhhHHHHHHHHHHHHHHHhccCccCCCHHHHHHHHcCC-C
Confidence            999985       234556666  664 4444454443   3444455555432    2211 1222   33344332 0


Q ss_pred             CCCHHHHHHHHHHHHH
Q psy450          405 QMSGADIYSICSNAWT  420 (478)
Q Consensus       405 ~~sg~di~~l~~~a~~  420 (478)
                      .-+.+++.+++..++.
T Consensus       218 pGnvReL~~~l~~~~~  233 (304)
T 1ojl_A          218 PGNIRELENAIERAVV  233 (304)
T ss_dssp             SSHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            1234567777776654

>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=99.45  E-value=8.2e-13  Score=130.34  Aligned_cols=157  Identities=20%  Similarity=0.217  Sum_probs=109.7

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC-----cEEEEechhhhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM-----NFLAVKGPELLNKYI  275 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~-----~~~~v~~~~l~~~~~  275 (478)
                      +.+..|++++|++.+++.|...+..     |..+ +++|+||||||||++++++++.+..     .+..++.++..    
T Consensus        19 ~rp~~~~~~~g~~~~~~~L~~~i~~-----g~~~-~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~----   88 (340)
T 1sxj_C           19 YRPETLDEVYGQNEVITTVRKFVDE-----GKLP-HLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDR----   88 (340)
T ss_dssp             TCCSSGGGCCSCHHHHHHHHHHHHT-----TCCC-CEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCC----
T ss_pred             hCCCcHHHhcCcHHHHHHHHHHHhc-----CCCc-eEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccc----
Confidence            4567799999999999988876642     2223 4999999999999999999998732     35666654321    


Q ss_pred             cchHHHHHHHHHHhH------hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          276 GQSEENIRNVFLKAR------SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       276 g~~~~~~~~~~~~a~------~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                        ....++..+....      ...+.|++|||+|.+..             ...+.|+..++..  .....+|.+||.+.
T Consensus        89 --~~~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~~-------------~~~~~L~~~le~~--~~~~~~il~~n~~~  151 (340)
T 1sxj_C           89 --GIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTN-------------AAQNALRRVIERY--TKNTRFCVLANYAH  151 (340)
T ss_dssp             --SHHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCH-------------HHHHHHHHHHHHT--TTTEEEEEEESCGG
T ss_pred             --cHHHHHHHHHHHHhhcccCCCCceEEEEeCCCCCCH-------------HHHHHHHHHHhcC--CCCeEEEEEecCcc
Confidence              1223333332222      12368999999999862             3456677777643  34567778889999


Q ss_pred             CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCC
Q psy450          350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFK  388 (478)
Q Consensus       350 ~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~  388 (478)
                      .+.+++++  |+. .+.+.. ++.++..++++..++..+
T Consensus       152 ~i~~~i~s--R~~-~~~~~~-l~~~~~~~~l~~~~~~~~  186 (340)
T 1sxj_C          152 KLTPALLS--QCT-RFRFQP-LPQEAIERRIANVLVHEK  186 (340)
T ss_dssp             GSCHHHHT--TSE-EEECCC-CCHHHHHHHHHHHHHTTT
T ss_pred             ccchhHHh--hce-eEeccC-CCHHHHHHHHHHHHHHcC
Confidence            99999999  985 666764 677888888887775433

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.43  E-value=5.8e-14  Score=120.60  Aligned_cols=112  Identities=13%  Similarity=0.156  Sum_probs=80.5

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHH
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFL  287 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~  287 (478)
                      +++|.+..++.+.+.+......    +.+++|+||||||||++|+++++..+ +++.+++.++....       ....+.
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~----~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~~~~~~~-------~~~~~~   72 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKR----TSPVFLTGEAGSPFETVARYFHKNGT-PWVSPARVEYLIDM-------PMELLQ   72 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTC----SSCEEEEEETTCCHHHHHGGGCCTTS-CEECCSSTTHHHHC-------HHHHHH
T ss_pred             CceeCCHHHHHHHHHHHHHhCC----CCcEEEECCCCccHHHHHHHHHHhCC-CeEEechhhCChHh-------hhhHHH
Confidence            5788888888888887765432    55799999999999999999998888 99999998775433       345565


Q ss_pred             HhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          288 KARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       288 ~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                      .+.   +++|||||+|.+..             .....++..++.. ...++.+|+|||.+
T Consensus        73 ~a~---~~~l~lDei~~l~~-------------~~q~~Ll~~l~~~-~~~~~~iI~~tn~~  116 (143)
T 3co5_A           73 KAE---GGVLYVGDIAQYSR-------------NIQTGITFIIGKA-ERCRVRVIASCSYA  116 (143)
T ss_dssp             HTT---TSEEEEEECTTCCH-------------HHHHHHHHHHHHH-TTTTCEEEEEEEEC
T ss_pred             hCC---CCeEEEeChHHCCH-------------HHHHHHHHHHHhC-CCCCEEEEEecCCC
Confidence            554   35999999999963             2344455555432 23457788888865

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.43  E-value=2.9e-13  Score=116.52  Aligned_cols=112  Identities=15%  Similarity=0.211  Sum_probs=79.8

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhcchHHHHHH
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIGQSEENIRN  284 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g~~~~~~~~  284 (478)
                      +++|.+...+.+.+.+......    +.++||+||||||||++|+++++..   +.+|+ +++..+...      .....
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~----~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~------~~~~~   70 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSET----DIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNA------PQLND   70 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTC----CSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTS------SCHHH
T ss_pred             CceeCCHHHHHHHHHHHHHhCC----CCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcc------hhhhc
Confidence            5788888888888777655322    5579999999999999999999887   67899 999876443      22344


Q ss_pred             HHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          285 VFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       285 ~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                      .+..+.   .++|||||+|.+..             .....|+..+..  ...++.+|+|||.+
T Consensus        71 ~~~~a~---~g~l~ldei~~l~~-------------~~q~~Ll~~l~~--~~~~~~~I~~t~~~  116 (145)
T 3n70_A           71 FIALAQ---GGTLVLSHPEHLTR-------------EQQYHLVQLQSQ--EHRPFRLIGIGDTS  116 (145)
T ss_dssp             HHHHHT---TSCEEEECGGGSCH-------------HHHHHHHHHHHS--SSCSSCEEEEESSC
T ss_pred             HHHHcC---CcEEEEcChHHCCH-------------HHHHHHHHHHhh--cCCCEEEEEECCcC
Confidence            555553   35999999999963             344556665543  23456788889874

>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=99.40  E-value=4.3e-12  Score=128.22  Aligned_cols=223  Identities=13%  Similarity=0.075  Sum_probs=137.2

Q ss_pred             CCcccccCcHHHHHHHHHHH-HhhhhhCCCCCceEEE--eCCCCChHHHHHHHHHHHh---------CCcEEEEechhh-
Q psy450          204 VSWEDIGGLSKLKAEILSTF-RGVNRTSGLKRSGLLL--YGPPGTGKTLIAKAVATEC---------RMNFLAVKGPEL-  270 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~-~~~~~~~~~~~~~iLl--~Gp~GtGKT~la~~la~~~---------~~~~~~v~~~~l-  270 (478)
                      ...++++|.++..+.|.+.+ .......+..+..+++  +||||+|||++++.+++.+         +..++++++... 
T Consensus        19 ~~p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (412)
T 1w5s_A           19 YIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAP   98 (412)
T ss_dssp             CCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCC
T ss_pred             cCCCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCC
Confidence            33478999999999998887 6544321123667999  9999999999999999876         456788886321 


Q ss_pred             -----hhhh---h-------cchHHH-HHHHHHHhH-hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC
Q psy450          271 -----LNKY---I-------GQSEEN-IRNVFLKAR-SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV  333 (478)
Q Consensus       271 -----~~~~---~-------g~~~~~-~~~~~~~a~-~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~  333 (478)
                           ....   .       +.+... ...+..... ...|.+|+|||+|.+...+.   ..    ...+..++..+...
T Consensus        99 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~---~~----~~~l~~l~~~~~~~  171 (412)
T 1w5s_A           99 NLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPR---IA----AEDLYTLLRVHEEI  171 (412)
T ss_dssp             SHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTT---SC----HHHHHHHHTHHHHS
T ss_pred             CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccC---cc----hHHHHHHHHHHHhc
Confidence                 1110   0       111122 222222222 34578999999999874310   00    23455555544432


Q ss_pred             C-CC--CCeEEEEEcCCCCC---CC---ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCC---CCCCCHHHHHHh
Q psy450          334 H-TS--QDVFILGATNRVDL---LD---PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKL---SDDVSLDSLVHH  401 (478)
Q Consensus       334 ~-~~--~~v~vI~ttn~~~~---ld---~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~---~~~~~~~~la~~  401 (478)
                      . ..  .++.+|++|+.++.   ++   +.+.+  ++...+.++. ++.++..++++..+.....   ..+.....++..
T Consensus       172 ~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~--~~~~~i~l~~-l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~  248 (412)
T 1w5s_A          172 PSRDGVNRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPA-YKSRELYTILEQRAELGLRDTVWEPRHLELISDV  248 (412)
T ss_dssp             CCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCC-CCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHH
T ss_pred             ccCCCCceEEEEEEeccccHHHHHhhhcchhhh--hcCCeeeeCC-CCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHH
Confidence            2 12  67888888887652   33   55666  6766677764 7888999999776643211   112225556666


Q ss_pred             cCC------CCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          402 FPS------QMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       402 ~~~------~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      + .      | ++..+..++..|...+..+.          ...++.+++..+
T Consensus       249 ~-~~~~~~~G-~p~~~~~l~~~a~~~a~~~~----------~~~i~~~~v~~~  289 (412)
T 1w5s_A          249 Y-GEDKGGDG-SARRAIVALKMACEMAEAMG----------RDSLSEDLVRKA  289 (412)
T ss_dssp             H-CGGGTSCC-CHHHHHHHHHHHHHHHHHTT----------CSSCCHHHHHHH
T ss_pred             H-HHhccCCC-cHHHHHHHHHHHHHHHHHcC----------CCCCCHHHHHHH
Confidence            5 4      4 45577777877765554321          345778888777

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens}

Probab=99.37  E-value=1.5e-12  Score=99.16  Aligned_cols=75  Identities=11%  Similarity=0.166  Sum_probs=68.3

Q ss_pred             CCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          110 LPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       110 ~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      |+||.++|.+||+.+++++  ++..++++ +.||+.|+||||+||..+|++|+..++++   +...|+++||..|+..+.
T Consensus         1 plPd~~~R~~Il~~~l~~~--~~~~~~dl-~~la~~t~G~SGADi~~l~~eA~~~a~~~---~~~~i~~~d~~~Al~~v~   74 (78)
T 3kw6_A            1 PPPNEEARLDILKIHSRKM--NLTRGINL-RKIAELMPGASGAEVKGVCTEAGMYALRE---RRVHVTQEDFEMAVAKVM   74 (78)
T ss_dssp             CCCCHHHHHHHHHHHHTTS--EECTTCCH-HHHHHTCTTCCHHHHHHHHHHHHHHHHHT---TCSEECHHHHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHHhcCC--CCCCccCH-HHHHHHcCCCCHHHHHHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHH
Confidence            7899999999999999888  55678888 99999999999999999999999999876   567899999999999876


Q ss_pred             h
Q psy450          190 S  190 (478)
Q Consensus       190 ~  190 (478)
                      .
T Consensus        75 ~   75 (78)
T 3kw6_A           75 Q   75 (78)
T ss_dssp             C
T ss_pred             h
Confidence            4

>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=99.35  E-value=2.3e-11  Score=119.62  Aligned_cols=160  Identities=16%  Similarity=0.197  Sum_probs=109.2

Q ss_pred             cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc------------------------EEEEec
Q psy450          212 LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN------------------------FLAVKG  267 (478)
Q Consensus       212 ~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~------------------------~~~v~~  267 (478)
                      +++..+.+...+.     .+..++.+||+||||+|||++|+++|+.+.+.                        ++.++.
T Consensus         7 ~~~~~~~l~~~i~-----~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~   81 (334)
T 1a5t_A            7 LRPDFEKLVASYQ-----AGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAP   81 (334)
T ss_dssp             GHHHHHHHHHHHH-----TTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECC
T ss_pred             hHHHHHHHHHHHH-----cCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEec
Confidence            4555555555443     23336779999999999999999999987542                        333332


Q ss_pred             hhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEE
Q psy450          268 PELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILG  343 (478)
Q Consensus       268 ~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~  343 (478)
                      .+-   ........++.+++.+..    ..+.|++|||+|.+.             ....+.|++.++.  +..++++|.
T Consensus        82 ~~~---~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~-------------~~a~naLLk~lEe--p~~~~~~Il  143 (334)
T 1a5t_A           82 EKG---KNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLT-------------DAAANALLKTLEE--PPAETWFFL  143 (334)
T ss_dssp             CTT---CSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBC-------------HHHHHHHHHHHTS--CCTTEEEEE
T ss_pred             ccc---CCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhcC-------------HHHHHHHHHHhcC--CCCCeEEEE
Confidence            100   011234456777776643    346899999999996             3456788888885  455788888


Q ss_pred             EcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhc
Q psy450          344 ATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHF  402 (478)
Q Consensus       344 ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~  402 (478)
                      +||.++.+.+.+++  |+. .+.++. ++.++...+++...   .++ +..+..++..+
T Consensus       144 ~t~~~~~l~~ti~S--Rc~-~~~~~~-~~~~~~~~~L~~~~---~~~-~~~~~~l~~~s  194 (334)
T 1a5t_A          144 ATREPERLLATLRS--RCR-LHYLAP-PPEQYAVTWLSREV---TMS-QDALLAALRLS  194 (334)
T ss_dssp             EESCGGGSCHHHHT--TSE-EEECCC-CCHHHHHHHHHHHC---CCC-HHHHHHHHHHT
T ss_pred             EeCChHhCcHHHhh--cce-eeeCCC-CCHHHHHHHHHHhc---CCC-HHHHHHHHHHc
Confidence            99999999999999  984 678875 78888888887654   222 22245566554

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens}

Probab=99.34  E-value=1.9e-12  Score=100.18  Aligned_cols=77  Identities=9%  Similarity=0.128  Sum_probs=69.6

Q ss_pred             eCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          109 VLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       109 ~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      -.+||.++|.+||+.+++++  ++..++++ +.||+.|+||||+||.++|++|+..++++   ....|+.+||..|+..+
T Consensus         8 ~~~Pd~~~R~~IL~~~l~~~--~l~~dvdl-~~LA~~T~G~SGADL~~l~~eAa~~alr~---~~~~I~~~df~~Al~~v   81 (86)
T 2krk_A            8 HSHPNEEARLDILKIHSRKM--NLTRGINL-RKIAELMPGASGAEVKGVCTEAGMYALRE---RRVHVTQEDFEMAVAKV   81 (86)
T ss_dssp             CCCCCHHHHHHHHHHHTTTS--EECTTCCC-HHHHHTCSSCCHHHHHHHHHHHHHHHHHT---TCSEECHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHHcCC--CCCcccCH-HHHHHHcCCCCHHHHHHHHHHHHHHHHHH---cCCCCCHHHHHHHHHHH
Confidence            46899999999999999988  56678888 99999999999999999999999999876   46789999999999998


Q ss_pred             hhh
Q psy450          189 QSR  191 (478)
Q Consensus       189 ~~~  191 (478)
                      .|.
T Consensus        82 ~p~   84 (86)
T 2krk_A           82 MQK   84 (86)
T ss_dssp             HCC
T ss_pred             ccC
Confidence            764

>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=99.33  E-value=1.2e-11  Score=119.60  Aligned_cols=142  Identities=12%  Similarity=0.113  Sum_probs=102.6

Q ss_pred             CcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh------CCcEEEEechhhhhhhhcchHHHHHH
Q psy450          211 GLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC------RMNFLAVKGPELLNKYIGQSEENIRN  284 (478)
Q Consensus       211 g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~------~~~~~~v~~~~l~~~~~g~~~~~~~~  284 (478)
                      |++++.+.|...+..     +. ..++||+||||+|||++|+++++.+      ...++.++.+.     .......++.
T Consensus         1 g~~~~~~~L~~~i~~-----~~-~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~-----~~~~id~ir~   69 (305)
T 2gno_A            1 GAKDQLETLKRIIEK-----SE-GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG-----ENIGIDDIRT   69 (305)
T ss_dssp             ---CHHHHHHHHHHT-----CS-SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS-----SCBCHHHHHH
T ss_pred             ChHHHHHHHHHHHHC-----CC-CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCc-----CCCCHHHHHH
Confidence            456666666665532     22 5679999999999999999999864      34677777542     0123445777


Q ss_pred             HHHHhHhC----CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCC
Q psy450          285 VFLKARSA----APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGR  360 (478)
Q Consensus       285 ~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~R  360 (478)
                      +++.+...    ...|++|||+|.+.             ....+.|++.++.  +..++++|.+|+.|+.+.+++++  |
T Consensus        70 li~~~~~~p~~~~~kvviIdead~lt-------------~~a~naLLk~LEe--p~~~t~fIl~t~~~~kl~~tI~S--R  132 (305)
T 2gno_A           70 IKDFLNYSPELYTRKYVIVHDCERMT-------------QQAANAFLKALEE--PPEYAVIVLNTRRWHYLLPTIKS--R  132 (305)
T ss_dssp             HHHHHTSCCSSSSSEEEEETTGGGBC-------------HHHHHHTHHHHHS--CCTTEEEEEEESCGGGSCHHHHT--T
T ss_pred             HHHHHhhccccCCceEEEeccHHHhC-------------HHHHHHHHHHHhC--CCCCeEEEEEECChHhChHHHHc--e
Confidence            77777532    24799999999996             3457889999985  45567888888889999999999  8


Q ss_pred             CCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          361 LDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       361 f~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                         .+.++. ++.++...+++..+
T Consensus       133 ---~~~f~~-l~~~~i~~~L~~~~  152 (305)
T 2gno_A          133 ---VFRVVV-NVPKEFRDLVKEKI  152 (305)
T ss_dssp             ---SEEEEC-CCCHHHHHHHHHHH
T ss_pred             ---eEeCCC-CCHHHHHHHHHHHh
Confidence               778875 56777777887665

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.32  E-value=5.9e-12  Score=133.61  Aligned_cols=217  Identities=19%  Similarity=0.273  Sum_probs=130.8

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc---EEEEechhhh----
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN---FLAVKGPELL----  271 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~---~~~v~~~~l~----  271 (478)
                      ..+++..|++++|++.+++.+...+..        ..+++|+||||||||++|++++..+...   .+.+.+....    
T Consensus        33 ~~~rp~~l~~i~G~~~~l~~l~~~i~~--------g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~~~~~~~~~~~~~~p  104 (604)
T 3k1j_A           33 IEVPEKLIDQVIGQEHAVEVIKTAANQ--------KRHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPEDENMP  104 (604)
T ss_dssp             SCCCSSHHHHCCSCHHHHHHHHHHHHT--------TCCEEEECCTTSSHHHHHHHHHHTSCCSSCEEEEEECCTTCTTSC
T ss_pred             ccccccccceEECchhhHhhccccccC--------CCEEEEEeCCCCCHHHHHHHHhccCCcccCCeEEEeCCcccccCC
Confidence            346778899999999999887766542        3469999999999999999999987432   1222111000    


Q ss_pred             ----------hh------------------------------------------hhcchHHHHHHHHHH-----------
Q psy450          272 ----------NK------------------------------------------YIGQSEENIRNVFLK-----------  288 (478)
Q Consensus       272 ----------~~------------------------------------------~~g~~~~~~~~~~~~-----------  288 (478)
                                ..                                          +..........+|..           
T Consensus       105 ~i~~~p~g~~~~~~e~~~~~~~~~~~~r~~~~~~~~~~~~~nl~v~~~~~~~~~~v~~~~~~~~~L~G~~~~~~~~~g~~  184 (604)
T 3k1j_A          105 RIKTVPACQGRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKAPFIDATGAHAGALLGDVRHDPFQSGGL  184 (604)
T ss_dssp             EEEEEETTHHHHHHHHHHHHHHHHTCC-----------CCCEEEECCTTCSSCCEEECTTCCHHHHHCEECCCCC----C
T ss_pred             cEEEEecchHHHHHHHHHHhhccchhhhhhcccccccccccceeeccccCCCCCEEEcCCCCHHhcCceEEechhhcCCc
Confidence                      00                                          000000001111110           


Q ss_pred             ------------hHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC-------------------CCCC
Q psy450          289 ------------ARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV-------------------HTSQ  337 (478)
Q Consensus       289 ------------a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~-------------------~~~~  337 (478)
                                  .....+++|||||++.+.             ...++.|+..|+.-                   ....
T Consensus       185 ~~g~~~~i~~g~~~~a~~gvL~LDEi~~l~-------------~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~  251 (604)
T 3k1j_A          185 GTPAHERVEPGMIHRAHKGVLFIDEIATLS-------------LKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPC  251 (604)
T ss_dssp             CCCGGGGEECCHHHHTTTSEEEETTGGGSC-------------HHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEEC
T ss_pred             cccccccccCceeeecCCCEEEEechhhCC-------------HHHHHHHHHHHHcCcEEecccccccccccCCCCccce
Confidence                        112245699999999985             23455555555411                   1123


Q ss_pred             CeEEEEEcCCC--CCCCccccCCCCCC---eEEEeCC--CCCHHHHHHHHHHHHhcC-------CCCCCCCHHHHHHhcC
Q psy450          338 DVFILGATNRV--DLLDPAILRPGRLD---KSLYVGL--YEDRISQLGVLKAVVRKF-------KLSDDVSLDSLVHHFP  403 (478)
Q Consensus       338 ~v~vI~ttn~~--~~ld~~l~~~~Rf~---~~i~~~~--pp~~~~r~~il~~~~~~~-------~~~~~~~~~~la~~~~  403 (478)
                      ++.||++||+.  +.++++|++  ||.   ..+.++.  +...+....+++.+.+..       .++. .-+..++..++
T Consensus       252 ~~~vI~atn~~~~~~l~~~l~~--R~~v~~i~i~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ls~-eAl~~Li~~~~  328 (604)
T 3k1j_A          252 DFVLVAAGNLDTVDKMHPALRS--RIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTK-EAVEEIVREAQ  328 (604)
T ss_dssp             CCEEEEEECHHHHHHSCHHHHH--HHHHHSEEEECCSEEECCHHHHHHHHHHHHHHHHHHCSSCCBBH-HHHHHHHHHHH
T ss_pred             eEEEEEecCHHHHhhcCHHHHH--HhhccceEeeccccccCCHHHHHHHHHHHHHHHhhccCcccCCH-HHHHHHHHHHh
Confidence            68899999986  579999999  986   4555543  234555656665443321       1221 12455555431


Q ss_pred             --CC------CCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhch
Q psy450          404 --SQ------MSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGAC  449 (478)
Q Consensus       404 --~~------~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~  449 (478)
                        .|      .+.+++.++++.|...|..+          ....|+.+|+.+|.
T Consensus       329 r~~g~r~~l~~~~R~l~~llr~A~~~A~~~----------~~~~I~~edv~~A~  372 (604)
T 3k1j_A          329 KRAGRKGHLTLRLRDLGGIVRAAGDIAVKK----------GKKYVEREDVIEAV  372 (604)
T ss_dssp             HTTCSTTEEECCHHHHHHHHHHHHHHHHHT----------TCSSBCHHHHHHHH
T ss_pred             hhhccccccccCHHHHHHHHHHHHHHHHhc----------CcccccHHHHHHHH
Confidence              34      26889999999987555433          24579999999993

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.31  E-value=3e-12  Score=146.63  Aligned_cols=148  Identities=21%  Similarity=0.322  Sum_probs=106.7

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhh---------------------------------CCCCCce--EEEeCCCC
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRT---------------------------------SGLKRSG--LLLYGPPG  244 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~---------------------------------~~~~~~~--iLl~Gp~G  244 (478)
                      ..+..+|++++|++.+|+.+.+.+.++...                                 .|-.|+|  +|+|||||
T Consensus      1013 ~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~g 1092 (1706)
T 3cmw_A         1013 SASGSSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPES 1092 (1706)
T ss_dssp             -----------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTT
T ss_pred             ccCCceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCCC
Confidence            456689999999999999999998888521                                 0212344  99999999


Q ss_pred             ChHHHHHHHHHHHh---CCcEEEEechhhh------------hhhhcc----hHHHHHHHHHHhHhCCCeEEEEcCCccc
Q psy450          245 TGKTLIAKAVATEC---RMNFLAVKGPELL------------NKYIGQ----SEENIRNVFLKARSAAPCVVFFDELDSL  305 (478)
Q Consensus       245 tGKT~la~~la~~~---~~~~~~v~~~~l~------------~~~~g~----~~~~~~~~~~~a~~~~p~il~iDeid~l  305 (478)
                      ||||++|++++.+.   +.+.+.++..+..            +++.++    +++.++.++..|+...||++++|++++|
T Consensus      1093 ~GKT~la~~~~~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~~~~~i~~d~~~al 1172 (1706)
T 3cmw_A         1093 SGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAAL 1172 (1706)
T ss_dssp             SSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGGC
T ss_pred             CChHHHHHHHHHHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhcCCeEEEeCchHhc
Confidence            99999999998876   5566666665432            455566    8999999999999999999999999999


Q ss_pred             cCCCC---CC-CCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          306 APRRG---QE-DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       306 ~~~~~---~~-~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                      .+.+.   .. +.+.+...+++++++..+++.....+++|| +||+.
T Consensus      1173 ~~~~~~~g~~~~~~~~~~~r~~~q~l~~~~~~~~~~~v~v~-~~n~~ 1218 (1706)
T 3cmw_A         1173 TPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLI-FINQI 1218 (1706)
T ss_dssp             CCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHHTTCEEE-EEECE
T ss_pred             CcccccccccccccccHHHHHHHHHHHHHHhhhccCCeEEE-Eeccc
Confidence            98832   22 223367778899999999987777788888 67764

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens}

Probab=99.31  E-value=1.8e-12  Score=100.34  Aligned_cols=75  Identities=29%  Similarity=0.401  Sum_probs=69.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhch
Q psy450          370 YEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGAC  449 (478)
Q Consensus       370 pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~  449 (478)
                      ||+.++|.+||+.+++++++..++++..||+.+ +||||+||.++|++|++.|+++.          ...||++||.+| 
T Consensus        10 ~Pd~~~R~~IL~~~l~~~~l~~dvdl~~LA~~T-~G~SGADL~~l~~eAa~~alr~~----------~~~I~~~df~~A-   77 (86)
T 2krk_A           10 HPNEEARLDILKIHSRKMNLTRGINLRKIAELM-PGASGAEVKGVCTEAGMYALRER----------RVHVTQEDFEMA-   77 (86)
T ss_dssp             CCCHHHHHHHHHHHTTTSEECTTCCCHHHHHTC-SSCCHHHHHHHHHHHHHHHHHTT----------CSEECHHHHHHH-
T ss_pred             CcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHHc----------CCCCCHHHHHHH-
Confidence            789999999999999999988899999999987 89999999999999999999885          457999999999 


Q ss_pred             hccCCCcccccc
Q psy450          450 SLATAPDKFSQS  461 (478)
Q Consensus       450 ~~~~~l~~~~ps  461 (478)
                           +++++|.
T Consensus        78 -----l~~v~p~   84 (86)
T 2krk_A           78 -----VAKVMQK   84 (86)
T ss_dssp             -----HHHHHCC
T ss_pred             -----HHHHccC
Confidence                 8888775

>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone, chaperone-protein binding complex; HET: DNA; 3.80A {Saccharomyces cerevisiae} PDB: 4a3v_B*

Probab=99.24  E-value=1.7e-11  Score=95.44  Aligned_cols=76  Identities=12%  Similarity=0.135  Sum_probs=65.8

Q ss_pred             CHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhc
Q psy450          113 TEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRY  192 (478)
Q Consensus       113 ~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~  192 (478)
                      |.++|.+||+.+++++  ++..++++ +.||+.|+||||+||.++|++|+..++++   ....|+++||..|+..+.++.
T Consensus         2 d~~~R~~Il~~~~~~~--~~~~dvdl-~~lA~~t~G~SGADl~~l~~eAa~~a~r~---~~~~i~~~df~~Al~~v~~~~   75 (88)
T 3vlf_B            2 DLEGRANIFRIHSKSM--SVERGIRW-ELISRLCPNSTGAELRSVCTEAGMFAIRA---RRKVATEKDFLKAVDKVISGY   75 (88)
T ss_dssp             CSSHHHHHHHHHHTTS--CBCSCCCH-HHHHHTCSSCCHHHHHHHHHHHHHHHHHH---SCSSBCHHHHHHHHHHHTC--
T ss_pred             CHHHHHHHHHHHHCCC--CCCCccCH-HHHHHHcCCCcHHHHHHHHHHHHHHHHHh---ccccCCHHHHHHHHHHHhcCc
Confidence            5679999999999988  66778888 99999999999999999999999999976   457899999999999998765


Q ss_pred             cc
Q psy450          193 SD  194 (478)
Q Consensus       193 ~~  194 (478)
                      ..
T Consensus        76 ~~   77 (88)
T 3vlf_B           76 KK   77 (88)
T ss_dssp             --
T ss_pred             cc
Confidence            44

>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B* 2dvw_B*

Probab=99.21  E-value=6.9e-12  Score=96.73  Aligned_cols=79  Identities=29%  Similarity=0.384  Sum_probs=66.8

Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchhc
Q psy450          372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSL  451 (478)
Q Consensus       372 ~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~  451 (478)
                      +.++|.+||+.+++++++..++++..++..+ +||||+||.++|++|+..|+++.          ...||++||..|   
T Consensus         2 d~~~R~~Il~~~l~~~~~~~~vdl~~la~~t-~G~SGADi~~l~~eA~~~a~~~~----------~~~i~~~df~~A---   67 (83)
T 3aji_B            2 DRRQKRLIFSTITSKMNLSEEVDLEDYVARP-DKISGADINSICQESGMLAVREN----------RYIVLAKDFEKA---   67 (83)
T ss_dssp             CHHHHHHHHHHHHTTSCBCTTCCTHHHHTSS-CCCCHHHHHHHHHHHHHGGGTSC----------CSSBCHHHHHHH---
T ss_pred             CHHHHHHHHHHHhCCCCCCcccCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHhc----------cCCcCHHHHHHH---
Confidence            6789999999999999988899999999987 89999999999999999998764          457999999999   


Q ss_pred             cCCCccccccccccccc
Q psy450          452 ATAPDKFSQSVAPDNYS  468 (478)
Q Consensus       452 ~~~l~~~~ps~~~~~~~  468 (478)
                         +++++|+++ +++.
T Consensus        68 ---l~~~~ps~~-~~l~   80 (83)
T 3aji_B           68 ---YKTVIKKDE-QEHE   80 (83)
T ss_dssp             ---HHHHCC--------
T ss_pred             ---HHHHccCch-HHHH
Confidence               999999998 5543

>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B* 2dvw_B*

Probab=99.19  E-value=3.2e-11  Score=92.96  Aligned_cols=75  Identities=13%  Similarity=0.200  Sum_probs=65.5

Q ss_pred             CHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhc
Q psy450          113 TEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRY  192 (478)
Q Consensus       113 ~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~~  192 (478)
                      |.++|.+||+.+++++  ++..++++ +.||+.|+||||+||..+|++|+..++++   ....|+++||..|+..++|+.
T Consensus         2 d~~~R~~Il~~~l~~~--~~~~~vdl-~~la~~t~G~SGADi~~l~~eA~~~a~~~---~~~~i~~~df~~Al~~~~ps~   75 (83)
T 3aji_B            2 DRRQKRLIFSTITSKM--NLSEEVDL-EDYVARPDKISGADINSICQESGMLAVRE---NRYIVLAKDFEKAYKTVIKKD   75 (83)
T ss_dssp             CHHHHHHHHHHHHTTS--CBCTTCCT-HHHHTSSCCCCHHHHHHHHHHHHHGGGTS---CCSSBCHHHHHHHHHHHCC--
T ss_pred             CHHHHHHHHHHHhCCC--CCCcccCH-HHHHHHcCCCCHHHHHHHHHHHHHHHHHh---ccCCcCHHHHHHHHHHHccCc
Confidence            6889999999999988  56678888 99999999999999999999999999864   457899999999999998875


Q ss_pred             c
Q psy450          193 S  193 (478)
Q Consensus       193 ~  193 (478)
                      .
T Consensus        76 ~   76 (83)
T 3aji_B           76 E   76 (83)
T ss_dssp             -
T ss_pred             h
Confidence            4

>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone, chaperone-protein binding complex; HET: DNA; 3.80A {Saccharomyces cerevisiae} PDB: 4a3v_B*

Probab=99.18  E-value=2.5e-11  Score=94.50  Aligned_cols=78  Identities=21%  Similarity=0.290  Sum_probs=66.5

Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchhc
Q psy450          372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSL  451 (478)
Q Consensus       372 ~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~  451 (478)
                      +.++|.+||+.++++.++..++++..||..+ +||||+||.++|++|++.|+++.          ...||++||..|   
T Consensus         2 d~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t-~G~SGADl~~l~~eAa~~a~r~~----------~~~i~~~df~~A---   67 (88)
T 3vlf_B            2 DLEGRANIFRIHSKSMSVERGIRWELISRLC-PNSTGAELRSVCTEAGMFAIRAR----------RKVATEKDFLKA---   67 (88)
T ss_dssp             CSSHHHHHHHHHHTTSCBCSCCCHHHHHHTC-SSCCHHHHHHHHHHHHHHHHHHS----------CSSBCHHHHHHH---
T ss_pred             CHHHHHHHHHHHHCCCCCCCccCHHHHHHHc-CCCcHHHHHHHHHHHHHHHHHhc----------cccCCHHHHHHH---
Confidence            4578999999999999999999999999987 89999999999999999999984          457999999999   


Q ss_pred             cCCCccccccccccc
Q psy450          452 ATAPDKFSQSVAPDN  466 (478)
Q Consensus       452 ~~~l~~~~ps~~~~~  466 (478)
                         ++++.++....+
T Consensus        68 ---l~~v~~~~~~~~   79 (88)
T 3vlf_B           68 ---VDKVISGYKKFS   79 (88)
T ss_dssp             ---HHHHTC------
T ss_pred             ---HHHHhcCccccc
Confidence               999999886544

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens}

Probab=99.18  E-value=3.2e-11  Score=91.75  Aligned_cols=73  Identities=30%  Similarity=0.422  Sum_probs=66.4

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchh
Q psy450          371 EDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACS  450 (478)
Q Consensus       371 p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~  450 (478)
                      |+.++|.+||+.+++++++..++++..|+..+ +||||+||.++|++|+..|+++.          ...||++||..|  
T Consensus         3 Pd~~~R~~Il~~~l~~~~~~~~~dl~~la~~t-~G~SGADi~~l~~eA~~~a~~~~----------~~~i~~~d~~~A--   69 (78)
T 3kw6_A            3 PNEEARLDILKIHSRKMNLTRGINLRKIAELM-PGASGAEVKGVCTEAGMYALRER----------RVHVTQEDFEMA--   69 (78)
T ss_dssp             CCHHHHHHHHHHHHTTSEECTTCCHHHHHHTC-TTCCHHHHHHHHHHHHHHHHHTT----------CSEECHHHHHHH--
T ss_pred             CCHHHHHHHHHHHhcCCCCCCccCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHhC----------CCCCCHHHHHHH--
Confidence            79999999999999999988899999999987 89999999999999999999874          567999999999  


Q ss_pred             ccCCCccccc
Q psy450          451 LATAPDKFSQ  460 (478)
Q Consensus       451 ~~~~l~~~~p  460 (478)
                          ++++..
T Consensus        70 ----l~~v~~   75 (78)
T 3kw6_A           70 ----VAKVMQ   75 (78)
T ss_dssp             ----HHHHHC
T ss_pred             ----HHHHHh
Confidence                766543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.18  E-value=7e-11  Score=113.91  Aligned_cols=127  Identities=8%  Similarity=0.016  Sum_probs=82.8

Q ss_pred             HHHHhhccCccchhhhhHHHHhh----hhcCCCeEEEecccccccch------------hhHhhhccccccccccccchh
Q psy450           18 HLLTNYFATPRYHHLNDIVKINL----KKYNLDIFKYDEVNYLCNVK------------YVYFKLCSFDSVNVKSNETKD   81 (478)
Q Consensus        18 ~~~~~~~~~~~~~~~~~if~~~a----~~~~p~ilfiDe~d~i~~~r------------~~~~~l~~~d~~~~~~~~~~~   81 (478)
                      .+.+.|.+... ..++.+|+ .|    +..+||||||||+|++++.+            +.+.+++.||......... .
T Consensus        71 ~l~~~~~g~~~-~~i~~~f~-~a~~~~~~~~~~vl~iDEiD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~-~  147 (293)
T 3t15_A           71 ELESGNAGEPA-KLIRQRYR-EAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPG-M  147 (293)
T ss_dssp             HHHCC---HHH-HHHHHHHH-HHHHHHTTSSCCCEEEECCC--------------CHHHHHHHHHHHHHCCC--------
T ss_pred             HhhhccCchhH-HHHHHHHH-HHHHHHhcCCCeEEEEechhhhcCCCCCCccccchHHHHHHHHHHHhcccccccccc-c
Confidence            34455555444 47889998 88    57789999999999998843            3478888888543111000 0


Q ss_pred             hhccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHH
Q psy450           82 QQCKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERH  152 (478)
Q Consensus        82 ~~~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~  152 (478)
                      .......+|+||+       +|+|++|  ||++.|+  .|+.++|.+|++.++...      +.+. +.+++.++||+++
T Consensus       148 ~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~--~P~~~~r~~Il~~~~~~~------~~~~-~~l~~~~~~~~~~  218 (293)
T 3t15_A          148 YNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW--APTREDRIGVCTGIFRTD------NVPA-EDVVKIVDNFPGQ  218 (293)
T ss_dssp             ----CCCCCCEEEECSSCCC--CHHHHHHHEEEEEE--CCCHHHHHHHHHHHHGGG------CCCH-HHHHHHHHHSCSC
T ss_pred             cccccCCCcEEEEecCCcccCCHHHhCCCCCceeEe--CcCHHHHHHHHHHhccCC------CCCH-HHHHHHhCCCCcc
Confidence            0112345577777       8999998  9999887  579999999999988653      3445 8899999999999


Q ss_pred             HHHH
Q psy450          153 DLTC  156 (478)
Q Consensus       153 di~~  156 (478)
                      ++..
T Consensus       219 ~l~~  222 (293)
T 3t15_A          219 SIDF  222 (293)
T ss_dssp             CHHH
T ss_pred             cHHH
Confidence            9864

>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=99.09  E-value=3.1e-10  Score=101.03  Aligned_cols=134  Identities=17%  Similarity=0.102  Sum_probs=75.2

Q ss_pred             CCCCCcccccCc-HHHHHHHHHHHHhhhhhCCCC-CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEechhhhhhh
Q psy450          201 VPNVSWEDIGGL-SKLKAEILSTFRGVNRTSGLK-RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKGPELLNKY  274 (478)
Q Consensus       201 ~~~~~~~~i~g~-~~~k~~l~~~~~~~~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~~~l~~~~  274 (478)
                      +...+|+++++. ...++.+....... ...... +.+++|+||+|||||++++++++.+    |..+++++..++....
T Consensus         4 ~~~~~f~~~~~~~~~~~~~~~~~~~~~-~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~~~~~   82 (180)
T 3ec2_A            4 YWNANLDTYHPKNVSQNRALLTIRVFV-HNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRL   82 (180)
T ss_dssp             CTTCCSSSCCCCSHHHHHHHHHHHHHH-HSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHHHHHH
T ss_pred             hhhCccccccCCCHHHHHHHHHHHHHH-HhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHH
Confidence            445678888763 23333333222222 111111 5679999999999999999999877    6677788887776543


Q ss_pred             hcchHHH-HHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          275 IGQSEEN-IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       275 ~g~~~~~-~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                      ....... ....+...  ..|.+|+|||++....        .......+..++....    ..+..+|.|||.+.
T Consensus        83 ~~~~~~~~~~~~~~~~--~~~~llilDE~~~~~~--------~~~~~~~l~~ll~~~~----~~~~~ii~tsn~~~  144 (180)
T 3ec2_A           83 KHLMDEGKDTKFLKTV--LNSPVLVLDDLGSERL--------SDWQRELISYIITYRY----NNLKSTIITTNYSL  144 (180)
T ss_dssp             HHHHHHTCCSHHHHHH--HTCSEEEEETCSSSCC--------CHHHHHHHHHHHHHHH----HTTCEEEEECCCCS
T ss_pred             HHHhcCchHHHHHHHh--cCCCEEEEeCCCCCcC--------CHHHHHHHHHHHHHHH----HcCCCEEEEcCCCh
Confidence            2111100 00122222  2567999999975421        1222344445544432    12345677788753

>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=99.06  E-value=9.1e-10  Score=110.90  Aligned_cols=172  Identities=13%  Similarity=0.160  Sum_probs=106.6

Q ss_pred             HHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhH-HHHHHHHHHhhcCCC--------CCCCeEEEEEc----
Q psy450          279 EENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVM-DRVVSQLLAEMDGVH--------TSQDVFILGAT----  345 (478)
Q Consensus       279 ~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~-~~~~~~ll~~l~~~~--------~~~~v~vI~tt----  345 (478)
                      ....+..+..+..+  .++++||+|++..+.++  ...... ..+...||..+++..        +..++++|+|.    
T Consensus       238 ~~~~~~ai~~ae~~--~il~~DEidki~~~~~~--~~~D~s~egvq~aLL~~le~~~~~~~~~~~d~~~ilfI~~gaf~~  313 (444)
T 1g41_A          238 EELKQKAIDAVEQN--GIVFIDEIDKICKKGEY--SGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQV  313 (444)
T ss_dssp             HHHHHHHHHHHHHH--CEEEEETGGGGSCCSSC--SSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSS
T ss_pred             HHHHHHHHHHhccC--CeeeHHHHHHHhhccCC--CCCCchHHHHHHHHHHHhcccccccccceecCCcEEEEecccccc
Confidence            33444555555333  39999999999865431  111222 236778999888742        35678999887    


Q ss_pred             CCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHH--------H---HHhcCCCCC---CCCHHHHHHh------cCCC
Q psy450          346 NRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLK--------A---VVRKFKLSD---DVSLDSLVHH------FPSQ  405 (478)
Q Consensus       346 n~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~--------~---~~~~~~~~~---~~~~~~la~~------~~~~  405 (478)
                      +.|..+-|.|+.  ||+..+.++. .+.++...|+.        .   .+...+...   +.-+..+++.      ++.+
T Consensus       314 ~~~~dlipel~~--R~~i~i~l~~-lt~~e~~~Il~~~~~~l~~q~~~~~~~~~~~l~~~~~al~~i~~~a~~~~~~t~~  390 (444)
T 1g41_A          314 ARPSDLIPELQG--RLPIRVELTA-LSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTEN  390 (444)
T ss_dssp             CCGGGSCHHHHT--TCCEEEECCC-CCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCC
T ss_pred             CChhhcchHHhc--ccceeeeCCC-CCHHHHHHHHHHHHHhHHHHHHHHhcccCceEEECHHHHHHHHHHHHHhccCCcc
Confidence            244445578888  9999999986 79999999983        1   111111111   1125556653      2345


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchhccCCCccccccccccccccc
Q psy450          406 MSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLS  470 (478)
Q Consensus       406 ~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~~~~l~~~~ps~~~~~~~~~  470 (478)
                      ..++.++.++...+..+..+....    ......||.+++.+.         ..|.+...|++-+
T Consensus       391 ~GaR~L~~~ie~~~~~~~~~~~~~----~~~~~~i~~~~v~~~---------l~~~~~~~dl~~~  442 (444)
T 1g41_A          391 IGARRLHTVMERLMDKISFSASDM----NGQTVNIDAAYVADA---------LGEVVENEDLSRF  442 (444)
T ss_dssp             CGGGHHHHHHHHHHHHHHHHGGGC----TTCEEEECHHHHHHH---------HTTTTTCHHHHHH
T ss_pred             CCchHHHHHHHHHHHHHHhhcccc----CCCeEEEeHHHHHHh---------cCccccCCChhcc
Confidence            556778888877777766665432    123467999999887         3455555555433

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=99.03  E-value=1.1e-09  Score=130.99  Aligned_cols=138  Identities=21%  Similarity=0.342  Sum_probs=93.6

Q ss_pred             CceEEEeCCCCChHHHHHHH-HHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhH---------------hCCCeEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKA-VATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR---------------SAAPCVV  297 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~-la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~---------------~~~p~il  297 (478)
                      .+++||+||||||||++|+. +++..+..++.++++...+      ...+...+....               .+.++|+
T Consensus      1267 ~~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infsa~ts------~~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~Vl 1340 (2695)
T 4akg_A         1267 KRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTT------TEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVL 1340 (2695)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECCTTCC------HHHHHHHHHHHBCCEEETTTEEEEEBSSSSCEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEeecCCC------HHHHHHHHHHHhhhccccCCccccCCCCCceEEE
Confidence            56799999999999999954 5554477788888765432      223334443320               2335799


Q ss_pred             EEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCC--------CCeEEEEEcCCCC-----CCCccccCCCCCCeE
Q psy450          298 FFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTS--------QDVFILGATNRVD-----LLDPAILRPGRLDKS  364 (478)
Q Consensus       298 ~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~--------~~v~vI~ttn~~~-----~ld~~l~~~~Rf~~~  364 (478)
                      ||||++.....+.+    +....+++.+++. ..++...        .++.+|+|+|+|.     .++++++|  || ..
T Consensus      1341 FiDEinmp~~d~yg----~q~~lelLRq~le-~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllR--rf-~v 1412 (2695)
T 4akg_A         1341 FCDEINLPKLDKYG----SQNVVLFLRQLME-KQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTR--HA-AI 1412 (2695)
T ss_dssp             EEETTTCSCCCSSS----CCHHHHHHHHHHH-TSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHT--TE-EE
T ss_pred             EecccccccccccC----chhHHHHHHHHHh-cCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhh--ee-eE
Confidence            99999975543321    1222355555553 2222111        2589999999995     79999999  99 78


Q ss_pred             EEeCCCCCHHHHHHHHHHHHhc
Q psy450          365 LYVGLYEDRISQLGVLKAVVRK  386 (478)
Q Consensus       365 i~~~~pp~~~~r~~il~~~~~~  386 (478)
                      ++++. |+.+++..|+..+++.
T Consensus      1413 i~i~~-P~~~~l~~I~~~il~~ 1433 (2695)
T 4akg_A         1413 LYLGY-PSGKSLSQIYEIYYKA 1433 (2695)
T ss_dssp             EECCC-CTTTHHHHHHHHHHHH
T ss_pred             EEeCC-CCHHHHHHHHHHHHHH
Confidence            99987 6899999999887754

>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} PDB: 2dzo_B

Probab=99.01  E-value=7.5e-11  Score=90.56  Aligned_cols=79  Identities=23%  Similarity=0.310  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhchhccC
Q psy450          374 ISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGACSLAT  453 (478)
Q Consensus       374 ~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A~~~~~  453 (478)
                      ++|.+||+.+++++++..++++..++..+ +||||+||.++|++|++.|+++.          ...||++||..|     
T Consensus         1 ~~R~~Il~~~l~~~~~~~~vdl~~lA~~t-~G~SGADi~~l~~eAa~~ai~~~----------~~~i~~~df~~A-----   64 (82)
T 2dzn_B            1 MERRLIFGTIASKMSLAPEADLDSLIIRN-DSLSGAVIAAIMQEAGLRAVRKN----------RYVILQSDLEEA-----   64 (82)
T ss_dssp             -------------CEECTTCCSTTTTTSS-CCCCHHHHHHHHHHHHHHHHHTT----------CSEECHHHHHHH-----
T ss_pred             CHHHHHHHHHHcCCCCCCcCCHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHhc----------cCCcCHHHHHHH-----
Confidence            36889999999999888899999999987 89999999999999999999874          457999999999     


Q ss_pred             CCcccc-cccccccccc
Q psy450          454 APDKFS-QSVAPDNYSL  469 (478)
Q Consensus       454 ~l~~~~-ps~~~~~~~~  469 (478)
                       ++++. |+.+.+++..
T Consensus        65 -l~~v~~~~~~~~~~~~   80 (82)
T 2dzn_B           65 -YATQVKTDNTVDKFDF   80 (82)
T ss_dssp             -HHTTCC----------
T ss_pred             -HHHHHcCcCChHHHHh
Confidence             98884 6677666543

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=99.00  E-value=2.5e-10  Score=98.41  Aligned_cols=106  Identities=13%  Similarity=0.198  Sum_probs=69.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRG  310 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~  310 (478)
                      ...++|+||+|+|||+++++++..+   |...++++..++...               +...+|.+|+|||++.+.... 
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~---------------~~~~~~~lLilDE~~~~~~~~-   99 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT---------------DAAFEAEYLAVDQVEKLGNEE-   99 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC---------------GGGGGCSEEEEESTTCCCSHH-
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH---------------HHHhCCCEEEEeCccccChHH-
Confidence            5679999999999999999999987   677888887765432               112356899999998865311 


Q ss_pred             CCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcC-CCCCCC--ccccCCCCCCeEEEeCC
Q psy450          311 QEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN-RVDLLD--PAILRPGRLDKSLYVGL  369 (478)
Q Consensus       311 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn-~~~~ld--~~l~~~~Rf~~~i~~~~  369 (478)
                               ++.+..++..+.   ..+..++|.||| .|..+.  +.+.+  |+.....+.+
T Consensus       100 ---------~~~l~~li~~~~---~~g~~~iiits~~~p~~l~~~~~L~S--Rl~~g~~~~l  147 (149)
T 2kjq_A          100 ---------QALLFSIFNRFR---NSGKGFLLLGSEYTPQQLVIREDLRT--RMAYCLVYEV  147 (149)
T ss_dssp             ---------HHHHHHHHHHHH---HHTCCEEEEEESSCTTTSSCCHHHHH--HGGGSEECCC
T ss_pred             ---------HHHHHHHHHHHH---HcCCcEEEEECCCCHHHccccHHHHH--HHhcCeeEEe
Confidence                     233334444332   222332344555 454332  77887  8887777665

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=99.00  E-value=1.2e-09  Score=99.05  Aligned_cols=103  Identities=22%  Similarity=0.235  Sum_probs=62.7

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCC--CCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhc
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGL--KRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIG  276 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~--~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g  276 (478)
                      ...+|+++.+.+...+.+.+.+.........  .+.+++|+||||||||++|+++++.+   +.+++.++++++......
T Consensus        20 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~~~~~   99 (202)
T 2w58_A           20 LRASLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKH   99 (202)
T ss_dssp             GCCCTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHHHHHHHHH
T ss_pred             HcCCHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHHHHHHHHH
Confidence            4567888887553333222222222222111  23789999999999999999999987   678888998877654322


Q ss_pred             ch-HHHHHHHHHHhHhCCCeEEEEcCCcccc
Q psy450          277 QS-EENIRNVFLKARSAAPCVVFFDELDSLA  306 (478)
Q Consensus       277 ~~-~~~~~~~~~~a~~~~p~il~iDeid~l~  306 (478)
                      .. ...+...+.....  +.+|+|||++...
T Consensus       100 ~~~~~~~~~~~~~~~~--~~~lilDei~~~~  128 (202)
T 2w58_A          100 SLQDQTMNEKLDYIKK--VPVLMLDDLGAEA  128 (202)
T ss_dssp             C---CCCHHHHHHHHH--SSEEEEEEECCC-
T ss_pred             HhccchHHHHHHHhcC--CCEEEEcCCCCCc
Confidence            11 0011223333333  3599999997654

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.94  E-value=1.4e-09  Score=105.31  Aligned_cols=141  Identities=11%  Similarity=0.091  Sum_probs=97.5

Q ss_pred             HhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccc--------hhhHhhhccccccccccccchhhhccCCCcEEE
Q psy450           21 TNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNV--------KYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKL   92 (478)
Q Consensus        21 ~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~--------r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~v   92 (478)
                      +.+++.... .++.+|+ .+   .++||||||+|.+++.        ..++.++..|+.              ...++++
T Consensus       112 ~~~~g~~~~-~~~~~~~-~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~--------------~~~~~~~  172 (309)
T 3syl_A          112 GQYIGHTAP-KTKEVLK-RA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMEN--------------NRDDLVV  172 (309)
T ss_dssp             CSSTTCHHH-HHHHHHH-HH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHH--------------CTTTCEE
T ss_pred             hhcccccHH-HHHHHHH-hc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhc--------------CCCCEEE
Confidence            344444443 6677786 54   5899999999999743        366777777773              2334455


Q ss_pred             Ee------------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHh-------cCCCCHHH
Q psy450           93 VL------------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSV-------TSGFERHD  153 (478)
Q Consensus        93 ia------------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~-------t~G~s~~d  153 (478)
                      |+            +||++++||+..++|+.|+.+++.+|++.++...  ....+.+.++.++..       ...-++.+
T Consensus       173 i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~~~--~~~~~~~~~~~l~~~~~~~~~~~~~gn~r~  250 (309)
T 3syl_A          173 ILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQ--NYQMTPEAETALRAYIGLRRNQPHFANARS  250 (309)
T ss_dssp             EEEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHHHT--TCEECHHHHHHHHHHHHHHTTSSSCCHHHH
T ss_pred             EEeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHHhccCCCCCcHHH
Confidence            44            4899999999999999999999999999999876  344455555777765       23345899


Q ss_pred             HHHHHHHHHHHHHHhhcC-CCCCCCHHHHH
Q psy450          154 LTCLVRLSVKNKMLKQGI-NKRDLQKEDFQ  182 (478)
Q Consensus       154 i~~l~~~a~~~a~~~~~~-~~~~it~~d~~  182 (478)
                      +.++++.++..+..+... ....++.+++.
T Consensus       251 l~~~l~~a~~~~~~r~~~~~~~~~~~~~l~  280 (309)
T 3syl_A          251 IRNALDRARLRQANRLFTASSGPLDARALS  280 (309)
T ss_dssp             HHHHHHHHHHHHHHHHHHC---CEEHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhccCCCCCHHHHh
Confidence            999999998866533111 23455555543

>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} PDB: 2dzo_B

Probab=98.90  E-value=3.8e-10  Score=86.56  Aligned_cols=69  Identities=16%  Similarity=0.202  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          115 PERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       115 ~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      ++|.+||+.+++++  ++..++++ +.||+.|+||||+||.++|++|+..++++   ....|+.+||..|+..+.
T Consensus         1 ~~R~~Il~~~l~~~--~~~~~vdl-~~lA~~t~G~SGADi~~l~~eAa~~ai~~---~~~~i~~~df~~Al~~v~   69 (82)
T 2dzn_B            1 MERRLIFGTIASKM--SLAPEADL-DSLIIRNDSLSGAVIAAIMQEAGLRAVRK---NRYVILQSDLEEAYATQV   69 (82)
T ss_dssp             -------------C--EECTTCCS-TTTTTSSCCCCHHHHHHHHHHHHHHHHHT---TCSEECHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHcCC--CCCCcCCH-HHHHHHcCCCCHHHHHHHHHHHHHHHHHh---ccCCcCHHHHHHHHHHHH
Confidence            47999999999887  55677888 99999999999999999999999999976   457899999999999874

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=98.90  E-value=3.7e-08  Score=97.75  Aligned_cols=122  Identities=20%  Similarity=0.338  Sum_probs=78.5

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc--EEEEechhhhhh-----hhcchH
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN--FLAVKGPELLNK-----YIGQSE  279 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~--~~~v~~~~l~~~-----~~g~~~  279 (478)
                      .+++|.+.....+.+.+......    ...++++|++||||+.+|+++....+..  |+.++|+.+...     ..|...
T Consensus       129 ~~~ig~s~~~~~~~~~~~~~a~~----~~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~~~~lfg~~~  204 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPKIAKS----KAPVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELAESELFGHEK  204 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHHTS----CSCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTHHHHHHEECS
T ss_pred             ccccccchHHHHHHhhhhhhhcc----chhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHHHHHhcCccc
Confidence            35778777777777666555432    3459999999999999999998877543  999999765321     111110


Q ss_pred             H-------HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC-----CC----CCCeEEEE
Q psy450          280 E-------NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV-----HT----SQDVFILG  343 (478)
Q Consensus       280 ~-------~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~-----~~----~~~v~vI~  343 (478)
                      .       .....|..|..   .+|||||++.+.             ......|+..++.-     ..    .-++.+|+
T Consensus       205 g~~tga~~~~~g~~~~a~~---gtlfldei~~l~-------------~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~  268 (368)
T 3dzd_A          205 GAFTGALTRKKGKLELADQ---GTLFLDEVGELD-------------QRVQAKLLRVLETGSFTRLGGNQKIEVDIRVIS  268 (368)
T ss_dssp             CSSSSCCCCEECHHHHTTT---SEEEEETGGGSC-------------HHHHHHHHHHHHHSEECCBTCCCBEECCCEEEE
T ss_pred             cccCCcccccCChHhhcCC---CeEEecChhhCC-------------HHHHHHHHHHHHhCCcccCCCCcceeeeeEEEE
Confidence            0       01124555443   499999999997             34555566555421     11    12577899


Q ss_pred             EcCCC
Q psy450          344 ATNRV  348 (478)
Q Consensus       344 ttn~~  348 (478)
                      +||..
T Consensus       269 at~~~  273 (368)
T 3dzd_A          269 ATNKN  273 (368)
T ss_dssp             EESSC
T ss_pred             ecCCC
Confidence            99863

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=98.87  E-value=2.2e-08  Score=119.87  Aligned_cols=254  Identities=15%  Similarity=0.127  Sum_probs=140.3

Q ss_pred             cCCCeEEEecccccccch----hhHhhhcc-ccc--cccccccchhhhccCCCcEEEEe------------eCHhHHhcc
Q psy450           43 YNLDIFKYDEVNYLCNVK----YVYFKLCS-FDS--VNVKSNETKDQQCKQQHKKKLVL------------IRKQIQKLF  103 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r----~~~~~l~~-~d~--~~~~~~~~~~~~~~~~~~v~via------------ld~al~rRf  103 (478)
                      .+++||||||++.....+    .+..+|.+ ||.  +-..+.    .+...-.++.+||            +||+++|||
T Consensus      1335 gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~----~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf 1410 (2695)
T 4akg_A         1335 IKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPE----NKWVTIERIHIVGACNPPTDPGRIPMSERFTRHA 1410 (2695)
T ss_dssp             SSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTT----CCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTE
T ss_pred             CceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCC----CcEEEecCEEEEEecCCCccCCCccCChhhhhee
Confidence            346899999999876654    22233332 231  100000    0000113466666            899999999


Q ss_pred             ccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCCh-hHHHHHHH-----------hc-------CCCCHHHHHHHHHHHHHH
Q psy450          104 LKTINVLPLTEPERRLLIQYQLDCLGGDYGFDA-SLVEYLSS-----------VT-------SGFERHDLTCLVRLSVKN  164 (478)
Q Consensus       104 ~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~-~~i~~la~-----------~t-------~G~s~~di~~l~~~a~~~  164 (478)
                       ..++++.|+.+++..|+..+++.+- ....++ .+.+.++.           ..       --|+..|+..+++-....
T Consensus      1411 -~vi~i~~P~~~~l~~I~~~il~~~l-~~~~~v~~~~~~lv~ati~~y~~v~~~~~~~~k~HY~FnlRDLsrv~qGll~~ 1488 (2695)
T 4akg_A         1411 -AILYLGYPSGKSLSQIYEIYYKAIF-KLVPEFRSYTEPFARASVHLYNECKARYSTGLQSHYLFSPRELTRLVRGVYTA 1488 (2695)
T ss_dssp             -EEEECCCCTTTHHHHHHHHHHHHHT-TSSGGGGGGHHHHHHHHHHHHHHHHHHSCTTTCTTCCCCHHHHHHHHHHHHHH
T ss_pred             -eEEEeCCCCHHHHHHHHHHHHHHHh-ccCHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCCcccCHHHHHHHHHHHHhc
Confidence             8899999999999999999986541 111111 11122221           11       147888888777654332


Q ss_pred             HH---------------Hh--hcCCCCCCCHHHHH---HHHHHhhhhcccCCC--C-CCCC-------CCCcccccCcHH
Q psy450          165 KM---------------LK--QGINKRDLQKEDFQ---QIYDDLQSRYSDQLD--A-PSVP-------NVSWEDIGGLSK  214 (478)
Q Consensus       165 a~---------------~~--~~~~~~~it~~d~~---~a~~~~~~~~~~~~~--~-~~~~-------~~~~~~i~g~~~  214 (478)
                      ..               ++  +.-..+-++.+|-.   ..+............  . ...|       ...++++. .++
T Consensus      1489 ~~~~~~~~~~~l~rLw~HE~~Rvf~DRLv~~~D~~~f~~~l~~~~~~~f~~~~~~~~~~~~~~f~df~~~~Y~~v~-~~~ 1567 (2695)
T 4akg_A         1489 INTGPRQTLRSLIRLWAYEAWRIFADRLVGVKEKNSFEQLLYETVDKYLPNQDLGNISSTSLLFSGLLSLDFKEVN-KTD 1567 (2695)
T ss_dssp             HHTSSCCCHHHHHHHHHHHHHHHHTTTCCSSHHHHHHHHHHHHHHHHHSCCSCCCCCSTTTCCEESSSSSSCEECC-HHH
T ss_pred             CchhhhccHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcccchhhhccCCceeeecCCCcceecC-HHH
Confidence            11               00  11123455555533   233322211111100  0 0000       11234442 344


Q ss_pred             HHHHHHHHHHhhh----------------------hhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          215 LKAEILSTFRGVN----------------------RTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       215 ~k~~l~~~~~~~~----------------------~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      .++.+.+.+....                      +-...+..|+||+|++||||++++|..|...+..++.+..+.-.+
T Consensus      1568 l~~~l~~~l~~yn~~~~~m~LVlF~dai~Hi~RI~Ril~~p~G~~LLvGvgGsGkqSltrLaa~i~~~~~fqi~~~~~Y~ 1647 (2695)
T 4akg_A         1568 LVNFIEERFKTFCDEELEVPMVIHESMVDHILRIDRALKQVQGHMMLIGASRTGKTILTRFVAWLNGLKIVQPKIHRHSN 1647 (2695)
T ss_dssp             HHHHHHHHHHHHHHHSCCCCCCCCHHHHHHHHHHHHHHHSSSEEEEEECTTTSCHHHHHHHHHHHTTCEEECCCCCTTCC
T ss_pred             HHHHHHHHHHHHHhhcCCceeeeHHHHHHHHHHHHHHHcCCCCCEEEECCCCCcHHHHHHHHHHHhCCeeEEEEeeCCCC
Confidence            5555555443321                      111123568999999999999999999999999999887643211


Q ss_pred             hhhcchHHHHHHHHHHhH-hCCCeEEEEcCCccc
Q psy450          273 KYIGQSEENIRNVFLKAR-SAAPCVVFFDELDSL  305 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~-~~~p~il~iDeid~l  305 (478)
                        ..+-...++.++..|. .+.|.+++++|-+-.
T Consensus      1648 --~~~f~eDLk~l~~~aG~~~~~~vFL~tD~qi~ 1679 (2695)
T 4akg_A         1648 --LSDFDMILKKAISDCSLKESRTCLIIDESNIL 1679 (2695)
T ss_dssp             --HHHHHHHHHHHHHHHHHSCCCEEEEEETTTCC
T ss_pred             --HHHHHHHHHHHHHHcCCCCCceEEEEeccccc
Confidence              1233456777887774 566788889887643

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=98.85  E-value=8.5e-09  Score=103.20  Aligned_cols=202  Identities=17%  Similarity=0.226  Sum_probs=112.9

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEechhhhhh-----hhcchH
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR---MNFLAVKGPELLNK-----YIGQSE  279 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~~~~l~~~-----~~g~~~  279 (478)
                      .++|.+...+.+.+.+......    ..+++++|++|||||++|+++....+   .+|+.++|+.+...     ..|...
T Consensus       138 ~~ig~s~~m~~l~~~i~~~a~~----~~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~~~elfg~~~  213 (387)
T 1ny5_A          138 EYVFESPKMKEILEKIKKISCA----ECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEK  213 (387)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTC----CSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCT
T ss_pred             hhhhccHHhhHHHHHHHHhcCC----CCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHHHHHhcCCCC
Confidence            4566666666666555543321    44589999999999999999988764   68999999765322     112110


Q ss_pred             H-------HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC-----CC----CCCeEEEE
Q psy450          280 E-------NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV-----HT----SQDVFILG  343 (478)
Q Consensus       280 ~-------~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~-----~~----~~~v~vI~  343 (478)
                      .       .....|..|..   ++|||||++.+..             .....|+..++.-     ..    ..++.||+
T Consensus       214 g~~tga~~~~~g~~~~a~~---gtlfldei~~l~~-------------~~q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~  277 (387)
T 1ny5_A          214 GAFTGAVSSKEGFFELADG---GTLFLDEIGELSL-------------EAQAKLLRVIESGKFYRLGGRKEIEVNVRILA  277 (387)
T ss_dssp             TSSTTCCSCBCCHHHHTTT---SEEEEESGGGCCH-------------HHHHHHHHHHHHSEECCBTCCSBEECCCEEEE
T ss_pred             CCCCCcccccCCceeeCCC---cEEEEcChhhCCH-------------HHHHHHHHHHhcCcEEeCCCCceeeccEEEEE
Confidence            0       01234445443   4999999999973             4455555554421     11    12578999


Q ss_pred             EcCCCC-------CCCccccCCCCCCeEEEeCCCCCHHHHH---HHHHHHHhc----CCCC-CCCC---HHHHHHhcCCC
Q psy450          344 ATNRVD-------LLDPAILRPGRLDKSLYVGLYEDRISQL---GVLKAVVRK----FKLS-DDVS---LDSLVHHFPSQ  405 (478)
Q Consensus       344 ttn~~~-------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~---~il~~~~~~----~~~~-~~~~---~~~la~~~~~~  405 (478)
                      +||..-       .+.+.+..  |+. .+.+.+||-++.+.   .+...++++    .+.. ...+   +..+..+   .
T Consensus       278 at~~~l~~~~~~g~fr~dl~~--rl~-~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~l~~~---~  351 (387)
T 1ny5_A          278 ATNRNIKELVKEGKFREDLYY--RLG-VIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSY---P  351 (387)
T ss_dssp             EESSCHHHHHHTTSSCHHHHH--HHT-TEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHS---C
T ss_pred             eCCCCHHHHHHcCCccHHHHH--hhc-CCeecCCcchhccccHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhC---C
Confidence            999741       12222222  332 23344456554333   344444432    2221 1122   3333322   3


Q ss_pred             CCH--HHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          406 MSG--ADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       406 ~sg--~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      +.|  ++++++++.|+..+             ....|+.+|+...
T Consensus       352 wpGNvreL~~~i~~~~~~~-------------~~~~i~~~~l~~~  383 (387)
T 1ny5_A          352 WYGNVRELKNVIERAVLFS-------------EGKFIDRGELSCL  383 (387)
T ss_dssp             CTTHHHHHHHHHHHHHHHC-------------CSSEECHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHhC-------------CCCcCcHHHCcHh
Confidence            444  57777777776432             1346888888665

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.83  E-value=5.4e-09  Score=101.27  Aligned_cols=102  Identities=17%  Similarity=0.234  Sum_probs=59.9

Q ss_pred             CCCcccccCcH-HHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC----CcEEEEechhhhhhhhcc
Q psy450          203 NVSWEDIGGLS-KLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR----MNFLAVKGPELLNKYIGQ  277 (478)
Q Consensus       203 ~~~~~~i~g~~-~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~----~~~~~v~~~~l~~~~~g~  277 (478)
                      ..+|+++.+.. .....+.....+........+.+++|+||||||||++|.++++.+.    .++++++++++.......
T Consensus       120 ~~tfd~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~~l~~~l~~~  199 (308)
T 2qgz_A          120 HIHLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNA  199 (308)
T ss_dssp             SCCGGGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHHHHHHHHHCC
T ss_pred             hCCHhhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHHHHHHHHHHH
Confidence            46788887643 2222222222222221111257899999999999999999998664    788888888776554322


Q ss_pred             h-HHHHHHHHHHhHhCCCeEEEEcCCcccc
Q psy450          278 S-EENIRNVFLKARSAAPCVVFFDELDSLA  306 (478)
Q Consensus       278 ~-~~~~~~~~~~a~~~~p~il~iDeid~l~  306 (478)
                      . .......+....  .+.+|+|||++...
T Consensus       200 ~~~~~~~~~~~~~~--~~~lLiiDdig~~~  227 (308)
T 2qgz_A          200 ISNGSVKEEIDAVK--NVPVLILDDIGAEQ  227 (308)
T ss_dssp             CC----CCTTHHHH--TSSEEEEETCCC--
T ss_pred             hccchHHHHHHHhc--CCCEEEEcCCCCCC
Confidence            1 111222222222  23599999997654

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=98.82  E-value=5.2e-07  Score=88.59  Aligned_cols=186  Identities=15%  Similarity=0.205  Sum_probs=111.0

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh-------hhh
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL-------NKY  274 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~-------~~~  274 (478)
                      |....+.++|.++..+.|.+ +..         ..++++||+|+|||++++.+++..+..++++++....       ...
T Consensus         8 ~~~~~~~~~gR~~el~~L~~-l~~---------~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (357)
T 2fna_A            8 PKDNRKDFFDREKEIEKLKG-LRA---------PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDF   77 (357)
T ss_dssp             CCCSGGGSCCCHHHHHHHHH-TCS---------SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCCCHHHH
T ss_pred             CCCCHHHhcChHHHHHHHHH-hcC---------CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchhhccccCCCHHHH
Confidence            44456789999988888877 542         3699999999999999999999988778888875420       000


Q ss_pred             -------h------------------c--------c------hHHHHHHHHHHhHhC--CCeEEEEcCCccccCCCCCCC
Q psy450          275 -------I------------------G--------Q------SEENIRNVFLKARSA--APCVVFFDELDSLAPRRGQED  313 (478)
Q Consensus       275 -------~------------------g--------~------~~~~~~~~~~~a~~~--~p~il~iDeid~l~~~~~~~~  313 (478)
                             .                  +        .      ....+..++......  .|.+|+|||++.+....+   
T Consensus        78 ~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~---  154 (357)
T 2fna_A           78 LLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRG---  154 (357)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTT---
T ss_pred             HHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCc---
Confidence                   0                  0        0      011233444443332  388999999999874210   


Q ss_pred             CCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC---------CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHH
Q psy450          314 QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL---------LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV  384 (478)
Q Consensus       314 ~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~---------ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~  384 (478)
                        ... ...+..+....      .++.+|.|++....         ....+.  ||+...+.++. .+.++..++++..+
T Consensus       155 --~~~-~~~l~~~~~~~------~~~~~i~~g~~~~~l~~~l~~~~~~~~l~--~r~~~~i~l~~-l~~~e~~~~l~~~~  222 (357)
T 2fna_A          155 --VNL-LPALAYAYDNL------KRIKFIMSGSEMGLLYDYLRVEDPESPLF--GRAFSTVELKP-FSREEAIEFLRRGF  222 (357)
T ss_dssp             --CCC-HHHHHHHHHHC------TTEEEEEEESSHHHHHHHTTTTCTTSTTT--TCCCEEEEECC-CCHHHHHHHHHHHH
T ss_pred             --hhH-HHHHHHHHHcC------CCeEEEEEcCchHHHHHHHhccCCCCccc--cCccceeecCC-CCHHHHHHHHHHHH
Confidence              011 12333333221      25666666664321         111222  36667788874 78888888888776


Q ss_pred             hcCCCCCCCCHHHHHHhcCCCCCHHHHHHHH
Q psy450          385 RKFKLSDDVSLDSLVHHFPSQMSGADIYSIC  415 (478)
Q Consensus       385 ~~~~~~~~~~~~~la~~~~~~~sg~di~~l~  415 (478)
                      ...+...+. ...+...+ +|+.. -+..++
T Consensus       223 ~~~~~~~~~-~~~i~~~t-~G~P~-~l~~~~  250 (357)
T 2fna_A          223 QEADIDFKD-YEVVYEKI-GGIPG-WLTYFG  250 (357)
T ss_dssp             HHHTCCCCC-HHHHHHHH-CSCHH-HHHHHH
T ss_pred             HHcCCCCCc-HHHHHHHh-CCCHH-HHHHHH
Confidence            543333332 46777776 66543 344443

>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=98.80  E-value=3.3e-09  Score=101.66  Aligned_cols=118  Identities=18%  Similarity=0.201  Sum_probs=67.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEec--hhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG--PELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQ  311 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~--~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~  311 (478)
                      .+.++|+||||||||++|..++...+.++.+++.  .+..+.+....+..+..+.+......  +|+||+++.+......
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~~--LLVIDsI~aL~~~~~~  200 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHR--VIVIDSLKNVIGAAGG  200 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCS--EEEEECCTTTC-----
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhCC--EEEEeccccccccccc
Confidence            4457999999999999999999876555334433  33333333444555555666555554  9999999999754322


Q ss_pred             CCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccc
Q psy450          312 EDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAI  355 (478)
Q Consensus       312 ~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l  355 (478)
                      .... +...+.+.+++..+.++....++.+|+++| +...++++
T Consensus       201 ~s~~-G~v~~~lrqlL~~L~~~~k~~gvtVIlttn-p~s~deal  242 (331)
T 2vhj_A          201 NTTS-GGISRGAFDLLSDIGAMAASRGCVVIASLN-PTSNDDKI  242 (331)
T ss_dssp             -------CCHHHHHHHHHHHHHHHHHTCEEEEECC-CSSCSSSH
T ss_pred             cccc-chHHHHHHHHHHHHHHHHhhCCCEEEEEeC-CcccchhH
Confidence            1110 111233344444444333344677888888 44455543

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.80  E-value=4.3e-08  Score=97.27  Aligned_cols=132  Identities=12%  Similarity=0.114  Sum_probs=96.6

Q ss_pred             CCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhccccEEEeCCCCHH
Q psy450           45 LDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLFLKTINVLPLTEP  115 (478)
Q Consensus        45 p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf~~~i~~~~P~~~  115 (478)
                      |+||||||+|.+... ..+.++..++.....   .  .-......+.+|+         +|+++++||.. +.|+.|+.+
T Consensus       190 ~~vl~IDEi~~l~~~-~~~~L~~~le~~~~~---~--~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~-i~~~~~~~~  262 (368)
T 3uk6_A          190 PGVLFIDEVHMLDIE-SFSFLNRALESDMAP---V--LIMATNRGITRIRGTSYQSPHGIPIDLLDRLLI-VSTTPYSEK  262 (368)
T ss_dssp             BCEEEEESGGGSBHH-HHHHHHHHTTCTTCC---E--EEEEESCSEEECBTSSCEEETTCCHHHHTTEEE-EEECCCCHH
T ss_pred             CceEEEhhccccChH-HHHHHHHHhhCcCCC---e--eeeecccceeeeeccCCCCcccCCHHHHhhccE-EEecCCCHH
Confidence            899999999998643 455666656531100   0  0001111122222         78999999966 899999999


Q ss_pred             HHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          116 ERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       116 ~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      ++.+|++.++...  ....+.+.++.++..+.|.++.++..+++.|+..+..+   +...|+.+|+..++..+
T Consensus       263 e~~~il~~~~~~~--~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~---~~~~It~~~v~~a~~~~  330 (368)
T 3uk6_A          263 DTKQILRIRCEEE--DVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKR---KGTEVQVDDIKRVYSLF  330 (368)
T ss_dssp             HHHHHHHHHHHHT--TCCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHT---TCSSBCHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHc--CCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHh
Confidence            9999999999775  33455566699999998789999999999999888644   56789999999998864

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=98.79  E-value=3.9e-08  Score=98.49  Aligned_cols=207  Identities=17%  Similarity=0.098  Sum_probs=115.2

Q ss_pred             ccCcHHHHHHHHHHHHhhhhhCCCC-CceEEEeCCCCChHHHHHHHH-HHHhCCcEEEEech-----hhhhhhhcchH-H
Q psy450          209 IGGLSKLKAEILSTFRGVNRTSGLK-RSGLLLYGPPGTGKTLIAKAV-ATECRMNFLAVKGP-----ELLNKYIGQSE-E  280 (478)
Q Consensus       209 i~g~~~~k~~l~~~~~~~~~~~~~~-~~~iLl~Gp~GtGKT~la~~l-a~~~~~~~~~v~~~-----~l~~~~~g~~~-~  280 (478)
                      |.|++.+|..+.-.+......  .+ ..++||.|+||| ||++|+++ ++.+.... +....     .+.....+.+. .
T Consensus       215 I~G~e~vK~aLll~L~GG~~k--~rgdihVLL~G~PGt-KS~Lar~i~~~i~pR~~-ft~g~~ss~~gLt~s~r~~tG~~  290 (506)
T 3f8t_A          215 LPGAEEVGKMLALQLFSCVGK--NSERLHVLLAGYPVV-CSEILHHVLDHLAPRGV-YVDLRRTELTDLTAVLKEDRGWA  290 (506)
T ss_dssp             STTCHHHHHHHHHHHTTCCSS--GGGCCCEEEESCHHH-HHHHHHHHHHHTCSSEE-EEEGGGCCHHHHSEEEEESSSEE
T ss_pred             cCCCHHHHHHHHHHHcCCccc--cCCceeEEEECCCCh-HHHHHHHHHHHhCCCeE-EecCCCCCccCceEEEEcCCCcc
Confidence            578888877765444221100  11 337999999999 99999999 66654433 33221     11100000000 0


Q ss_pred             HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC-------CCCCCCeEEEEEcCCCC----
Q psy450          281 NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG-------VHTSQDVFILGATNRVD----  349 (478)
Q Consensus       281 ~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~-------~~~~~~v~vI~ttn~~~----  349 (478)
                      .-...+..|..   .++|+||++.+.             ......|+..|+.       ..-+.++.||+|+|..+    
T Consensus       291 ~~~G~l~LAdg---Gvl~lDEIn~~~-------------~~~qsaLlEaMEe~~VtI~G~~lparf~VIAA~NP~~~yd~  354 (506)
T 3f8t_A          291 LRAGAAVLADG---GILAVDHLEGAP-------------EPHRWALMEAMDKGTVTVDGIALNARCAVLAAINPGEQWPS  354 (506)
T ss_dssp             EEECHHHHTTT---SEEEEECCTTCC-------------HHHHHHHHHHHHHSEEEETTEEEECCCEEEEEECCCC--CC
T ss_pred             cCCCeeEEcCC---CeeehHhhhhCC-------------HHHHHHHHHHHhCCcEEECCEEcCCCeEEEEEeCcccccCC
Confidence            00112223322   499999999986             3456666666652       11234689999999865    


Q ss_pred             -------CCCccccCCCCCCeEEEeCCCCCHHHHH---------HHH---HHHHh--cCC--CCCCCCHHHHHH------
Q psy450          350 -------LLDPAILRPGRLDKSLYVGLYEDRISQL---------GVL---KAVVR--KFK--LSDDVSLDSLVH------  400 (478)
Q Consensus       350 -------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~---------~il---~~~~~--~~~--~~~~~~~~~la~------  400 (478)
                             .|++++++  |||..+.+.-+|+.+.-.         +.+   ..+.+  ...  ++++. .+.++.      
T Consensus       355 ~~s~~~~~Lp~alLD--RFDLi~i~~d~pd~e~d~e~~~~~ls~e~L~~yi~~ar~~~~~p~ls~ea-~~yI~~~y~~tR  431 (506)
T 3f8t_A          355 DPPIARIDLDQDFLS--HFDLIAFLGVDPRPGEPEEQDTEVPSYTLLRRYLLYAIREHPAPELTEEA-RKRLEHWYETRR  431 (506)
T ss_dssp             SCGGGGCCSCHHHHT--TCSEEEETTC--------------CCHHHHHHHHHHHHHHCSCCEECHHH-HHHHHHHHHHHH
T ss_pred             CCCccccCCChHHhh--heeeEEEecCCCChhHhhcccCCCCCHHHHHHHHHHHHhcCCCceeCHHH-HHHHHHHHHHHh
Confidence                   78899999  998766544334432210         111   12223  111  22111 111110      


Q ss_pred             -h---------cCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          401 -H---------FPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       401 -~---------~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                       .         ..-+.|.+.+..+++-|...|.-+.          ...|+.+|+..|
T Consensus       432 ~~~~~~~~~~~~~~giSpR~leaLiRlA~A~A~L~g----------R~~V~~eDV~~A  479 (506)
T 3f8t_A          432 EEVEERLGMGLPTLPVTRRQLESVERLAKAHARMRL----------SDDVEPEDVDIA  479 (506)
T ss_dssp             HHHHHHHHTTCCCCCCCHHHHHHHHHHHHHHHHHTT----------CSEECHHHHHHH
T ss_pred             cCcccccccccccccccHHHHHHHHHHHHHHHHHcC----------cCCCCHHHHHHH
Confidence             0         2346788888899888876666554          567999999999

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.76  E-value=4.6e-07  Score=88.76  Aligned_cols=190  Identities=18%  Similarity=0.226  Sum_probs=107.6

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh----------
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL----------  271 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~----------  271 (478)
                      |...-+.++|.++..+.|.+.+..        ...++++||+|+|||++++.+++..+  ++++++....          
T Consensus         7 ~~~~~~~~~gR~~el~~L~~~l~~--------~~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~~~~~~~~~~~~~~~   76 (350)
T 2qen_A            7 PKTRREDIFDREEESRKLEESLEN--------YPLTLLLGIRRVGKSSLLRAFLNERP--GILIDCRELYAERGHITREE   76 (350)
T ss_dssp             CCCSGGGSCSCHHHHHHHHHHHHH--------CSEEEEECCTTSSHHHHHHHHHHHSS--EEEEEHHHHHHTTTCBCHHH
T ss_pred             CCCChHhcCChHHHHHHHHHHHhc--------CCeEEEECCCcCCHHHHHHHHHHHcC--cEEEEeecccccccCCCHHH
Confidence            444567899999999998887653        14699999999999999999999875  6777764431          


Q ss_pred             --h---hhhcc---------------------hHHHHHHHHH----HhHhCCCeEEEEcCCccccCCCCCCCCCchhHHH
Q psy450          272 --N---KYIGQ---------------------SEENIRNVFL----KARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDR  321 (478)
Q Consensus       272 --~---~~~g~---------------------~~~~~~~~~~----~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~  321 (478)
                        .   ...+.                     ....+..++.    .+....|.+|+|||++.+.....   ...   ..
T Consensus        77 ~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~---~~~---~~  150 (350)
T 2qen_A           77 LIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGS---RGG---KE  150 (350)
T ss_dssp             HHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTT---TTT---HH
T ss_pred             HHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCc---cch---hh
Confidence              0   00000                     0011222222    22222489999999999874100   001   12


Q ss_pred             HHHHHHHhhcCCCCCCCeEEEEEcCCCC---------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC
Q psy450          322 VVSQLLAEMDGVHTSQDVFILGATNRVD---------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD  392 (478)
Q Consensus       322 ~~~~ll~~l~~~~~~~~v~vI~ttn~~~---------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~  392 (478)
                      ....+...++..   .++.+|.|++...         .....+.  ||+...+.++ |.+.++-.++++..+...+...+
T Consensus       151 ~~~~L~~~~~~~---~~~~~il~g~~~~~l~~~l~~~~~~~~l~--~~~~~~i~l~-pl~~~e~~~~l~~~~~~~~~~~~  224 (350)
T 2qen_A          151 LLALFAYAYDSL---PNLKIILTGSEVGLLHDFLKITDYESPLY--GRIAGEVLVK-PFDKDTSVEFLKRGFREVNLDVP  224 (350)
T ss_dssp             HHHHHHHHHHHC---TTEEEEEEESSHHHHHHHHCTTCTTSTTT--TCCCEEEECC-CCCHHHHHHHHHHHHHTTTCCCC
T ss_pred             HHHHHHHHHHhc---CCeEEEEECCcHHHHHHHHhhcCCCCccc--cCccceeeCC-CCCHHHHHHHHHHHHHHcCCCCC
Confidence            233332223321   3566666654421         1112222  3666677776 47888888888877654443222


Q ss_pred             -CCHHHHHHhcCCCCCHHHHHHHH
Q psy450          393 -VSLDSLVHHFPSQMSGADIYSIC  415 (478)
Q Consensus       393 -~~~~~la~~~~~~~sg~di~~l~  415 (478)
                       .....+...+ +|+.. -+..++
T Consensus       225 ~~~~~~i~~~t-gG~P~-~l~~~~  246 (350)
T 2qen_A          225 ENEIEEAVELL-DGIPG-WLVVFG  246 (350)
T ss_dssp             HHHHHHHHHHH-TTCHH-HHHHHH
T ss_pred             HHHHHHHHHHh-CCCHH-HHHHHH
Confidence             2355566665 56443 344333

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.68  E-value=2e-08  Score=90.54  Aligned_cols=124  Identities=19%  Similarity=0.175  Sum_probs=77.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH--------hC-CcEEEEechhhhhhhh----------cc-----hHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE--------CR-MNFLAVKGPELLNKYI----------GQ-----SEENIRNVFLKA  289 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~--------~~-~~~~~v~~~~l~~~~~----------g~-----~~~~~~~~~~~a  289 (478)
                      +...|++|+||+|||+.|...+..        .| .+++..+..++.....          ..     ....+...+.. 
T Consensus         5 ~mi~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~-   83 (199)
T 2r2a_A            5 AEICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKSTDEQLSAHDMYEWIKK-   83 (199)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEEEECCTTTCSSCCSSCEEGGGHHHHTTS-
T ss_pred             eeEEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccccchhhhhccccCcccccHHHHHHHhhc-
Confidence            345789999999999999886543        34 6666666665532211          11     11222222211 


Q ss_pred             HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCC
Q psy450          290 RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL  369 (478)
Q Consensus       290 ~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~  369 (478)
                      .....+||+|||++.+.+.+....   +.     ..++..+... ....+-+|.+|+.+..++..+++  |++..+++..
T Consensus        84 ~~~~~~vliIDEAq~l~~~~~~~~---e~-----~rll~~l~~~-r~~~~~iil~tq~~~~l~~~lr~--ri~~~~~l~~  152 (199)
T 2r2a_A           84 PENIGSIVIVDEAQDVWPARSAGS---KI-----PENVQWLNTH-RHQGIDIFVLTQGPKLLDQNLRT--LVRKHYHIAS  152 (199)
T ss_dssp             GGGTTCEEEETTGGGTSBCCCTTC---CC-----CHHHHGGGGT-TTTTCEEEEEESCGGGBCHHHHT--TEEEEEEEEE
T ss_pred             cccCceEEEEEChhhhccCccccc---hh-----HHHHHHHHhc-CcCCeEEEEECCCHHHHhHHHHH--HhheEEEEcC
Confidence            233467999999999976542111   11     1244455432 23456678888889999999998  9999998875

>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=98.65  E-value=7.9e-08  Score=100.38  Aligned_cols=162  Identities=14%  Similarity=0.098  Sum_probs=93.7

Q ss_pred             hhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch---hhHhhhccccccccccccchhhhc-cCCCcEEEEe---
Q psy450           22 NYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK---YVYFKLCSFDSVNVKSNETKDQQC-KQQHKKKLVL---   94 (478)
Q Consensus        22 ~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r---~~~~~l~~~d~~~~~~~~~~~~~~-~~~~~v~via---   94 (478)
                      .|.+.... .+...|. .+...+| |+||||+|.+...+   ..+.+|..||......-.....+. -....+++|+   
T Consensus       156 ~~ig~~~~-~~~~~~~-~a~~~~~-vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN  232 (543)
T 3m6a_A          156 TYVGAMPG-RIIQGMK-KAGKLNP-VFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATAN  232 (543)
T ss_dssp             ---------CHHHHHH-TTCSSSE-EEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECS
T ss_pred             HHhccCch-HHHHHHH-HhhccCC-EEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccC
Confidence            44444444 6677887 7776777 99999999999875   457778888753221100000000 0114566666   


Q ss_pred             ----eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhh-----cCC---CCCCChhHHHHHHHhcCC-CCHHHH----HHH
Q psy450           95 ----IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDC-----LGG---DYGFDASLVEYLSSVTSG-FERHDL----TCL  157 (478)
Q Consensus        95 ----ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~-----~~~---~~~~~~~~i~~la~~t~G-~s~~di----~~l  157 (478)
                          +||++++||+ .|+|+.|+.+++.+|++.++..     .+.   .+..+.+.+..++....+ ....++    ..+
T Consensus       233 ~~~~l~~aL~~R~~-vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~~~~~~~~~vR~L~~~i~~~  311 (543)
T 3m6a_A          233 NLATIPGPLRDRME-IINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDIIRYYTREAGVRSLERQLAAI  311 (543)
T ss_dssp             STTTSCHHHHHHEE-EEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHHHHHCCCSSSHHHHHHHHHH
T ss_pred             ccccCCHHHHhhcc-eeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHHHhCChhhchhHHHHHHHHH
Confidence                9999999995 7999999999999999998722     111   122334455776664443 344444    445


Q ss_pred             HHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          158 VRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       158 ~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      |+.++..... .......|+.+++..++...
T Consensus       312 ~~~aa~~~~~-~~~~~~~It~~~l~~~Lg~~  341 (543)
T 3m6a_A          312 CRKAAKAIVA-EERKRITVTEKNLQDFIGKR  341 (543)
T ss_dssp             HHHHHHHHHT-TCCSCCEECTTTTHHHHCSC
T ss_pred             HHHHHHHHHh-cCCcceecCHHHHHHHhCCc
Confidence            5554444432 22345679999998887643

>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=98.54  E-value=7.5e-07  Score=90.54  Aligned_cols=127  Identities=13%  Similarity=0.225  Sum_probs=94.7

Q ss_pred             CCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe----------eCHhHHhccc--cEEEeC
Q psy450           44 NLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----------IRKQIQKLFL--KTINVL  110 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----------ld~al~rRf~--~~i~~~  110 (478)
                      +|+||||||++.+.+.+ ....++..++.+            ...+..+|++          +++++++||.  ..+.++
T Consensus       194 ~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l------------~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~  261 (440)
T 2z4s_A          194 KVDILLIDDVQFLIGKTGVQTELFHTFNEL------------HDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLE  261 (440)
T ss_dssp             TCSEEEEECGGGGSSCHHHHHHHHHHHHHH------------HTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCC
T ss_pred             CCCEEEEeCcccccCChHHHHHHHHHHHHH------------HHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeC
Confidence            79999999999998763 344455555532            1233445555          6799999997  789999


Q ss_pred             CCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          111 PLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       111 ~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      .|+.++|.+|++..+...+..+  +.+.++.++..+.| +..++..+++.+...+...    +..|+.+++..++....
T Consensus       262 ~p~~e~r~~iL~~~~~~~~~~i--~~e~l~~la~~~~g-n~R~l~~~L~~~~~~a~~~----~~~It~~~~~~~l~~~~  333 (440)
T 2z4s_A          262 PPDEETRKSIARKMLEIEHGEL--PEEVLNFVAENVDD-NLRRLRGAIIKLLVYKETT----GKEVDLKEAILLLKDFI  333 (440)
T ss_dssp             CCCHHHHHHHHHHHHHHHTCCC--CTTHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHS----SSCCCHHHHHHHTSTTT
T ss_pred             CCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHHh----CCCCCHHHHHHHHHHHh
Confidence            9999999999999997653333  34445899988875 7889999988888776532    34699999988887654

>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=98.51  E-value=3.1e-07  Score=88.61  Aligned_cols=154  Identities=8%  Similarity=0.118  Sum_probs=99.8

Q ss_pred             hhhhhHHHHhh-----hhcCCCeEEEecccccccch-----------hhHhhhccccccccccccchhhhccCCCcEEEE
Q psy450           30 HHLNDIVKINL-----KKYNLDIFKYDEVNYLCNVK-----------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLV   93 (478)
Q Consensus        30 ~~~~~if~~~a-----~~~~p~ilfiDe~d~i~~~r-----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~vi   93 (478)
                      ..++.+|. .+     +...++||||||+|.+...+           +.+.++..++......    ..+......+++|
T Consensus        98 ~~~~~~~~-~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~----~~~~~~~~~~~~i  172 (310)
T 1ofh_A           98 SIIRDLTD-SAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVST----KHGMVKTDHILFI  172 (310)
T ss_dssp             HHHHHHHH-TTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEE----TTEEEECTTCEEE
T ss_pred             HHHHHHHH-HhhHHHhhccCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEec----ccccccCCcEEEE
Confidence            34666664 32     12348999999999998764           2566777777421100    0011123445555


Q ss_pred             e-----------eCHhHHhccccEEEeCCCCHHHHHHHHHH----HH-------hhcCCCCCCChhHHHHHHHhc-----
Q psy450           94 L-----------IRKQIQKLFLKTINVLPLTEPERRLLIQY----QL-------DCLGGDYGFDASLVEYLSSVT-----  146 (478)
Q Consensus        94 a-----------ld~al~rRf~~~i~~~~P~~~~r~~il~~----~~-------~~~~~~~~~~~~~i~~la~~t-----  146 (478)
                      +           ++|++.+||+..|+|+.|+.+++.+|++.    +.       ...+..+..+.+.++.++..+     
T Consensus       173 ~~~~~~~~~~~~l~~~l~~R~~~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~  252 (310)
T 1ofh_A          173 ASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNE  252 (310)
T ss_dssp             EEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHHHHHHHHH
T ss_pred             EcCCcccCCcccCCHHHHhhCCceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHHHhcCCeeccCHHHHHHHHHHhhhhcc
Confidence            4           79999999999999999999999999983    22       112112234555568888776     


Q ss_pred             --CCCCHHHHHHHHHHHHHHHHHhhcC---CCCCCCHHHHHHHHHHh
Q psy450          147 --SGFERHDLTCLVRLSVKNKMLKQGI---NKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       147 --~G~s~~di~~l~~~a~~~a~~~~~~---~~~~it~~d~~~a~~~~  188 (478)
                        ++.+...+..+++.+...+..+...   ....|+.+++..++...
T Consensus       253 ~~~~g~~R~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~v~~~l~~~  299 (310)
T 1ofh_A          253 KTENIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADALGEV  299 (310)
T ss_dssp             HSCCCTTHHHHHHHHHHSHHHHHHGGGCTTCEEEECHHHHHHHTCSS
T ss_pred             cccccCcHHHHHHHHHHHHhhhcCCccccCCEEEEeeHHHHHHHHhh
Confidence              3577889999999887665433211   12358999998887754

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=98.43  E-value=7.4e-07  Score=103.72  Aligned_cols=112  Identities=21%  Similarity=0.336  Sum_probs=77.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhh----hhhhhc------------chHHHHHHHHHHhHhCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPEL----LNKYIG------------QSEENIRNVFLKARSAAP  294 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l----~~~~~g------------~~~~~~~~~~~~a~~~~p  294 (478)
                      +.+++|+||||||||++|.+++.+.   |....+++..+.    .....|            ..+..++.+...++..+|
T Consensus      1427 g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~a~~~G~dl~~l~v~~~~~~E~~l~~~~~lvr~~~~ 1506 (2050)
T 3cmu_A         1427 GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAV 1506 (2050)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHTCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHHHHHcCCCchhceeecCChHHHHHHHHHHHHhcCCC
Confidence            6789999999999999999997765   556777775432    122222            345666677777788899


Q ss_pred             eEEEEcCCccccCCC---CCCCC-CchhHHHHHHHHHHhhcCCCCCCCeEEEEEc
Q psy450          295 CVVFFDELDSLAPRR---GQEDQ-SSGVMDRVVSQLLAEMDGVHTSQDVFILGAT  345 (478)
Q Consensus       295 ~il~iDeid~l~~~~---~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~v~vI~tt  345 (478)
                      ++|+||+++.+.+..   +..++ ..+...+++.+++..+.+.....+++||.|-
T Consensus      1507 ~lVVIDsi~al~p~~~~~g~~~~~~~~~~~R~lsqlL~~L~~~~~~~~v~VI~tN 1561 (2050)
T 3cmu_A         1507 DVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFIN 1561 (2050)
T ss_dssp             SEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEEEEE
T ss_pred             CEEEEcChhHhcccccccccccccccchHHHHHHHHHHHHHHHHHhCCcEEEEEc
Confidence            999999999888742   11121 2222356777777777776666777776543

>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=98.35  E-value=2.4e-06  Score=78.81  Aligned_cols=126  Identities=13%  Similarity=0.159  Sum_probs=91.2

Q ss_pred             cCCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCc-EEEEe---------eCHhHHhccc--cEEEe
Q psy450           43 YNLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHK-KKLVL---------IRKQIQKLFL--KTINV  109 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~-v~via---------ld~al~rRf~--~~i~~  109 (478)
                      .+|.||||||++.+.... ....++..++...           ..... +++.+         +++++.+||.  ..+++
T Consensus       103 ~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~-----------~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l  171 (242)
T 3bos_A          103 EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVA-----------EQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQL  171 (242)
T ss_dssp             GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHH-----------HHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEEC
T ss_pred             cCCCEEEEeccccccCCHHHHHHHHHHHHHHH-----------HcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEe
Confidence            358999999999987654 2344444444321           11222 44444         4688999996  89999


Q ss_pred             CCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHH
Q psy450          110 LPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYD  186 (478)
Q Consensus       110 ~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~  186 (478)
                      +.|+.+++.++++.++...+  ...+.+.++.++..+.| +...+..+++.+...+..+    ...|+.+++..++.
T Consensus       172 ~~~~~~~~~~~l~~~~~~~~--~~~~~~~~~~l~~~~~g-~~r~l~~~l~~~~~~a~~~----~~~It~~~v~~~l~  241 (242)
T 3bos_A          172 QPMMDDEKLAALQRRAAMRG--LQLPEDVGRFLLNRMAR-DLRTLFDVLDRLDKASMVH----QRKLTIPFVKEMLR  241 (242)
T ss_dssp             CCCCGGGHHHHHHHHHHHTT--CCCCHHHHHHHHHHTTT-CHHHHHHHHHHHHHHHHHH----TCCCCHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHccC-CHHHHHHHHHHHHHHHHHh----CCCCcHHHHHHHhh
Confidence            99999999999999997663  34556666899998865 7788888888888776432    35699999988764

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=98.34  E-value=8.4e-07  Score=102.15  Aligned_cols=113  Identities=20%  Similarity=0.283  Sum_probs=73.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH---hCCcEEEEechh-----hhh-----------hhhcchHHHHHHHHHHhHhCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE---CRMNFLAVKGPE-----LLN-----------KYIGQSEENIRNVFLKARSAAP  294 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~---~~~~~~~v~~~~-----l~~-----------~~~g~~~~~~~~~~~~a~~~~p  294 (478)
                      .+.+.++||+|||||++|-.++.+   .|....+++..+     +..           .++...+..+..+...++..+|
T Consensus      1431 g~~iei~g~~~sGkttl~~~~~a~~~~~g~~~~~i~~e~~~~~~~~~~~Gv~~~~l~~~~p~~~e~~l~~~~~~~~s~~~ 1510 (1706)
T 3cmw_A         1431 GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAV 1510 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEecCCCCCHHHHHHcCCCHHHeEEeCCCcHHHHHHHHHHHHHcCCC
Confidence            445999999999999998777543   366677776532     111           1344457777777788889999


Q ss_pred             eEEEEcCCccccCCCCCC----CCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcC
Q psy450          295 CVVFFDELDSLAPRRGQE----DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN  346 (478)
Q Consensus       295 ~il~iDeid~l~~~~~~~----~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn  346 (478)
                      ++|++|.+..|.++....    +.+-+...+.+++-+..+.+.-...++.+|++..
T Consensus      1511 ~~vvvDsv~al~~~~e~~~~~~~~~~~~~ar~m~~~lr~l~~~~~~~~~~~i~~~~ 1566 (1706)
T 3cmw_A         1511 DVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQ 1566 (1706)
T ss_dssp             SEEEESCSTTCCCTTTTC-------CCHHHHHHHHHHHHHHHHHHHHTCEEEEEEC
T ss_pred             CEEEEccHHhCCccccccccccccchhHHHHHHHHHHHHHHHHHHhCCcEEEEeec
Confidence            999999999999875322    2223333455555555555444445556665543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.34  E-value=4.9e-06  Score=81.35  Aligned_cols=139  Identities=11%  Similarity=0.046  Sum_probs=94.4

Q ss_pred             cCCCeEEEecccccccchhhHhhhccccccccccccchh---hhc-cCCCcEEEEe-------eCHhHHhccccEEEeCC
Q psy450           43 YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKD---QQC-KQQHKKKLVL-------IRKQIQKLFLKTINVLP  111 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~---~~~-~~~~~v~via-------ld~al~rRf~~~i~~~~  111 (478)
                      ..+++|||||+|.+... ..+.++..++...........   ... ....++.+|+       +++++++||+..+.++.
T Consensus       105 ~~~~vl~lDEi~~l~~~-~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~~R~~~~i~l~~  183 (338)
T 3pfi_A          105 SEGDILFIDEIHRLSPA-IEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRFGMQFRLEF  183 (338)
T ss_dssp             CTTCEEEEETGGGCCHH-HHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGGSCHHHHTTCSEEEECCC
T ss_pred             cCCCEEEEechhhcCHH-HHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccccCHHHHhhcCEEeeCCC
Confidence            46899999999998643 345566656532110000000   000 0111366666       89999999999999999


Q ss_pred             CCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          112 LTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       112 P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      |+.+++.++++.++...  ....+.+.++.++..+.| +...+.++++.+...+...   ....++.+++..++...
T Consensus       184 ~~~~e~~~il~~~~~~~--~~~~~~~~~~~l~~~~~G-~~r~l~~~l~~~~~~a~~~---~~~~i~~~~~~~~~~~~  254 (338)
T 3pfi_A          184 YKDSELALILQKAALKL--NKTCEEKAALEIAKRSRS-TPRIALRLLKRVRDFADVN---DEEIITEKRANEALNSL  254 (338)
T ss_dssp             CCHHHHHHHHHHHHHHT--TCEECHHHHHHHHHTTTT-CHHHHHHHHHHHHHHHHHT---TCSEECHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhc--CCCCCHHHHHHHHHHHCc-CHHHHHHHHHHHHHHHHhh---cCCccCHHHHHHHHHHh
Confidence            99999999999999876  334455556888886655 5577888888776655432   45678999998888764

>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=98.30  E-value=1e-06  Score=87.18  Aligned_cols=114  Identities=21%  Similarity=0.274  Sum_probs=72.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccC-CCCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAP-RRGQE  312 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~-~~~~~  312 (478)
                      +..++|+||||+||||++++++...+..++.+..+.-.      ....+.      ......++++||++.+.. .+...
T Consensus       169 ~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~~~~~------~~~~lg------~~~q~~~~l~dd~~~~~~~~r~l~  236 (377)
T 1svm_A          169 KRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDR------LNFELG------VAIDQFLVVFEDVKGTGGESRDLP  236 (377)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTT------HHHHHG------GGTTCSCEEETTCCCSTTTTTTCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEeccchh------HHHHHH------HhcchhHHHHHHHHHHHHHHhhcc
Confidence            56799999999999999999999887776554332110      000111      112335789999998875 22111


Q ss_pred             CCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeC
Q psy450          313 DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVG  368 (478)
Q Consensus       313 ~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~  368 (478)
                      .. .+.  .....+...+++     .+.|+.++|+++.+ +++.+|||++..++..
T Consensus       237 ~~-~~~--~~~~~l~~~ldG-----~v~v~~~tn~~~~l-~alf~pg~ld~~~~~l  283 (377)
T 1svm_A          237 SG-QGI--NNLDNLRDYLDG-----SVKVNLEKKHLNKR-TQIFPPGIVTMNEYSV  283 (377)
T ss_dssp             CC-SHH--HHHHTTHHHHHC-----SSCEEECCSSSCCE-EECCCCEEEEECSCCC
T ss_pred             cc-Ccc--hHHHHHHHHhcC-----CCeEeeccCchhhH-HHhhcCcccChhHHhh
Confidence            11 110  012334444554     24578889999999 7899999988776663

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.28  E-value=4.1e-06  Score=80.81  Aligned_cols=100  Identities=13%  Similarity=0.078  Sum_probs=73.1

Q ss_pred             HHHHHHHHhhccC-----ccchhhhhHHHHhh--hhcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccC
Q psy450           14 DILSHLLTNYFAT-----PRYHHLNDIVKINL--KKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQ   86 (478)
Q Consensus        14 ~~l~~~~~~~~~~-----~~~~~~~~if~~~a--~~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~   86 (478)
                      +++..++....++     .....++.+|+ ..  ....++|+|+||+|.+...++++.++....              ..
T Consensus        96 ~~~~~I~~~L~g~~~~~~~~~~~L~~~f~-~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~--------------~~  160 (318)
T 3te6_A           96 ALYEKIWFAISKENLCGDISLEALNFYIT-NVPKAKKRKTLILIQNPENLLSEKILQYFEKWIS--------------SK  160 (318)
T ss_dssp             HHHHHHHHHHSCCC--CCCCHHHHHHHHH-HSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHH--------------CS
T ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHHH-HhhhccCCceEEEEecHHHhhcchHHHHHHhccc--------------cc
Confidence            3455555555443     23457888897 64  456789999999999997777777765432              23


Q ss_pred             CCcEEEEe-----------eCHhHHhccc-cEEEeCCCCHHHHHHHHHHHHhhc
Q psy450           87 QHKKKLVL-----------IRKQIQKLFL-KTINVLPLTEPERRLLIQYQLDCL  128 (478)
Q Consensus        87 ~~~v~via-----------ld~al~rRf~-~~i~~~~P~~~~r~~il~~~~~~~  128 (478)
                      ..++.||+           +++++++||. ..|.|+.++.++..+|++..+...
T Consensus       161 ~s~~~vI~i~n~~d~~~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~~~  214 (318)
T 3te6_A          161 NSKLSIICVGGHNVTIREQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLKSL  214 (318)
T ss_dssp             SCCEEEEEECCSSCCCHHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEEecCcccchhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHHHhh
Confidence            44566665           5667788997 689999999999999999999765

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.25  E-value=7e-07  Score=79.81  Aligned_cols=30  Identities=20%  Similarity=0.372  Sum_probs=26.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      .++++++||||||||++|.++++.++..++
T Consensus        58 kn~ili~GPPGtGKTt~a~ala~~l~g~i~   87 (212)
T 1tue_A           58 KNCLVFCGPANTGKSYFGMSFIHFIQGAVI   87 (212)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHHHHTCEEC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHhCCCee
Confidence            457999999999999999999999865543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.25  E-value=7.8e-06  Score=81.08  Aligned_cols=141  Identities=14%  Similarity=0.209  Sum_probs=94.7

Q ss_pred             hhhHHHHhhhh-cCCCeEEEecccccccc----hhhHhhhccccccccccccchhhhccCCCcEEEEe----------eC
Q psy450           32 LNDIVKINLKK-YNLDIFKYDEVNYLCNV----KYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----------IR   96 (478)
Q Consensus        32 ~~~if~~~a~~-~~p~ilfiDe~d~i~~~----r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----------ld   96 (478)
                      +..++. ..+. ..|+||||||+|.+...    ..+..++..++..            ....++.+|+          ++
T Consensus       118 ~~~l~~-~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~------------~~~~~~~~I~~t~~~~~~~~l~  184 (387)
T 2v1u_A          118 YERLVK-RLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQEL------------GDRVWVSLVGITNSLGFVENLE  184 (387)
T ss_dssp             HHHHHH-HHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----------------CEEEEECSCSTTSSSSC
T ss_pred             HHHHHH-HHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhc------------CCCceEEEEEEECCCchHhhhC
Confidence            455554 3333 35899999999999865    3455555544421            0023445554          78


Q ss_pred             HhHHhcccc-EEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcC---CCCHHHHHHHHHHHHHHHHHhhcCC
Q psy450           97 KQIQKLFLK-TINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTS---GFERHDLTCLVRLSVKNKMLKQGIN  172 (478)
Q Consensus        97 ~al~rRf~~-~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~---G~s~~di~~l~~~a~~~a~~~~~~~  172 (478)
                      +++.+||.. .+.|+.|+.+++.+|++.++.........+.+.++.++..+.   | ....+..+++.++..+..+   +
T Consensus       185 ~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G-~~r~~~~~l~~a~~~a~~~---~  260 (387)
T 2v1u_A          185 PRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHG-DARRALDLLRVAGEIAERR---R  260 (387)
T ss_dssp             HHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSC-CHHHHHHHHHHHHHHHHHT---T
T ss_pred             HHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcc-CHHHHHHHHHHHHHHHHHc---C
Confidence            899999975 899999999999999999986411122233344578888776   5 4566777888887665432   4


Q ss_pred             CCCCCHHHHHHHHHHhh
Q psy450          173 KRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       173 ~~~it~~d~~~a~~~~~  189 (478)
                      ...++.+++..++....
T Consensus       261 ~~~i~~~~v~~a~~~~~  277 (387)
T 2v1u_A          261 EERVRREHVYSARAEIE  277 (387)
T ss_dssp             CSCBCHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHh
Confidence            57799999999988764

>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=98.20  E-value=1.9e-06  Score=85.26  Aligned_cols=145  Identities=10%  Similarity=0.080  Sum_probs=95.2

Q ss_pred             hccCccchhhhhHHHHhh----hhcCCCeEEEecccccccch-------------hhHhhhcccccccccc---c--cc-
Q psy450           23 YFATPRYHHLNDIVKINL----KKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKS---N--ET-   79 (478)
Q Consensus        23 ~~~~~~~~~~~~if~~~a----~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~---~--~~-   79 (478)
                      |++......++.+|+ .+    ....|+||||||+|.+...+             +.+.||..||+....-   .  .. 
T Consensus        92 ~~g~~~~~~~~~~~~-~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~~  170 (363)
T 3hws_A           92 YVGEDVENIIQKLLQ-KCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHP  170 (363)
T ss_dssp             HHHHHHTHHHHHHHH-HTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC-------------
T ss_pred             cccccHHHHHHHHHH-HhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCccccccC
Confidence            555554556777776 55    45679999999999998873             7888999998421100   0  00 


Q ss_pred             --hhhhccCCCcEEEEe---------------------------------------------------eCHhHHhccccE
Q psy450           80 --KDQQCKQQHKKKLVL---------------------------------------------------IRKQIQKLFLKT  106 (478)
Q Consensus        80 --~~~~~~~~~~v~via---------------------------------------------------ld~al~rRf~~~  106 (478)
                        +..-....+.++|.+                                                   ++|++..||+..
T Consensus       171 ~~~~~~i~tsn~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~R~~~~  250 (363)
T 3hws_A          171 QQEFLQVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIGRLPVV  250 (363)
T ss_dssp             ---CCCCCTTSSEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHTTCCEE
T ss_pred             CCceEEEECCCceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhcccCee
Confidence              000111222222222                                                   268889999999


Q ss_pred             EEeCCCCHHHHHHHHHH----HHhh-------cCCCCCCChhHHHHHHH--hcCCCCHHHHHHHHHHHHHHHHHh
Q psy450          107 INVLPLTEPERRLLIQY----QLDC-------LGGDYGFDASLVEYLSS--VTSGFERHDLTCLVRLSVKNKMLK  168 (478)
Q Consensus       107 i~~~~P~~~~r~~il~~----~~~~-------~~~~~~~~~~~i~~la~--~t~G~s~~di~~l~~~a~~~a~~~  168 (478)
                      +.|+.|+.+++.+|+..    ++..       .+..+..+.+.++.|++  ....+.+..+++++..++..++.+
T Consensus       251 ~~~~pl~~~~~~~I~~~~~~~l~~~~~~~~~~~~~~l~~~~~a~~~L~~~~~~~~~gaR~L~~~ie~~~~~~l~~  325 (363)
T 3hws_A          251 ATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYD  325 (363)
T ss_dssp             EECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTTTTHHHHHHHHHHHHHHS
T ss_pred             eecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHhhcCCccCchHHHHHHHHHHHHHHHh
Confidence            99999999999999986    3322       12223345566688885  445677889999999999888765

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=98.18  E-value=1.9e-05  Score=76.91  Aligned_cols=139  Identities=15%  Similarity=0.130  Sum_probs=92.2

Q ss_pred             CCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------------eCHhHHhccccEEEeCCC
Q psy450           45 LDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------------IRKQIQKLFLKTINVLPL  112 (478)
Q Consensus        45 p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------------ld~al~rRf~~~i~~~~P  112 (478)
                      .+|+||||++.+.+ ...+.++..|+.....   ...........++||+            +++++++||+..+.++.|
T Consensus       110 ~~vl~iDEi~~~~~-~~~~~Ll~~l~~~~~~---~~g~~~~~~~~~~viat~np~~~~~~~~l~~~l~~Rf~~~i~i~~p  185 (331)
T 2r44_A          110 SNFILADEVNRSPA-KVQSALLECMQEKQVT---IGDTTYPLDNPFLVLATQNPVEQEGTYPLPEAQVDRFMMKIHLTYL  185 (331)
T ss_dssp             SSEEEEETGGGSCH-HHHHHHHHHHHHSEEE---ETTEEEECCSSCEEEEEECTTCCSCCCCCCHHHHTTSSEEEECCCC
T ss_pred             ccEEEEEccccCCH-HHHHHHHHHHhcCcee---eCCEEEECCCCEEEEEecCCCcccCcccCCHHHHhheeEEEEcCCC
Confidence            38999999998754 3456666666532110   0000112233456665            689999999989999999


Q ss_pred             CHHHHHHHHHHHHhhcCC--------------------CCCCChhHHHHHHHhc-------------------CCCCHHH
Q psy450          113 TEPERRLLIQYQLDCLGG--------------------DYGFDASLVEYLSSVT-------------------SGFERHD  153 (478)
Q Consensus       113 ~~~~r~~il~~~~~~~~~--------------------~~~~~~~~i~~la~~t-------------------~G~s~~d  153 (478)
                      +.++|.+||+.+......                    ....+.+.++.++...                   .|.|...
T Consensus       186 ~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~v~~~~~~~~~i~~~~~~~r~~~~~~~~~~~~~~~~~~s~R~  265 (331)
T 2r44_A          186 DKESELEVMRRVSNMNFNYQVQKIVSKNDVLEIRNEINKVTISESLEKYIIELVFATRFPAEYGLEAEASYILYGASTRA  265 (331)
T ss_dssp             CHHHHHHHHHHHHCTTCCCCCCCCSCHHHHHHHHHHHHTCBCCHHHHHHHHHHHHHHHSGGGGTCHHHHHHEEECCCHHH
T ss_pred             CHHHHHHHHHhccccCcchhccccCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhccccccccccccccccCcChhH
Confidence            999999999998754210                    1122334445555432                   2568888


Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhh
Q psy450          154 LTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQS  190 (478)
Q Consensus       154 i~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~  190 (478)
                      ...+++.|...+..+   +...++.+|+..++..+..
T Consensus       266 ~~~ll~~a~a~A~l~---g~~~v~~~dv~~~~~~vl~  299 (331)
T 2r44_A          266 AINLNRVAKAMAFFN---NRDYVLPEDIKEVAYDILN  299 (331)
T ss_dssp             HHHHHHHHHHHHHHT---TCSBCCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHc---CCCCCCHHHHHHHHHHHhH
Confidence            888888877766543   4566999999999887653

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=98.18  E-value=1.4e-05  Score=73.25  Aligned_cols=118  Identities=14%  Similarity=0.181  Sum_probs=85.4

Q ss_pred             cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------eCHhHHhccccEEEeCCCCHHH
Q psy450           43 YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------IRKQIQKLFLKTINVLPLTEPE  116 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------ld~al~rRf~~~i~~~~P~~~~  116 (478)
                      ..|.+|||||+|.+.. ...+.++..++..             ....++|+.      +++++.+|+ ..++++.|+.++
T Consensus       125 ~~~~vlviDe~~~l~~-~~~~~l~~~l~~~-------------~~~~~~i~~t~~~~~~~~~l~~r~-~~i~l~~l~~~e  189 (250)
T 1njg_A          125 GRFKVYLIDEVHMLSR-HSFNALLKTLEEP-------------PEHVKFLLATTDPQKLPVTILSRC-LQFHLKALDVEQ  189 (250)
T ss_dssp             SSSEEEEEETGGGSCH-HHHHHHHHHHHSC-------------CTTEEEEEEESCGGGSCHHHHTTS-EEEECCCCCHHH
T ss_pred             CCceEEEEECcccccH-HHHHHHHHHHhcC-------------CCceEEEEEeCChHhCCHHHHHHh-hhccCCCCCHHH
Confidence            4589999999999743 3455666666531             122233333      889999997 789999999999


Q ss_pred             HHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Q psy450          117 RRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIY  185 (478)
Q Consensus       117 r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~  185 (478)
                      ..++++.++...+  ...+.+.++.+++.+.| +...+..+++.++..       ....|+.+++..++
T Consensus       190 ~~~~l~~~~~~~~--~~~~~~~~~~l~~~~~G-~~~~~~~~~~~~~~~-------~~~~i~~~~v~~~~  248 (250)
T 1njg_A          190 IRHQLEHILNEEH--IAHEPRALQLLARAAEG-SLRDALSLTDQAIAS-------GDGQVSTQAVSAML  248 (250)
T ss_dssp             HHHHHHHHHHHTT--CCBCHHHHHHHHHHHTT-CHHHHHHHHHHHHTT-------TTSSBCHHHHHHHS
T ss_pred             HHHHHHHHHHhcC--CCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHhc-------cCceecHHHHHHHh
Confidence            9999999997653  33455556899999987 778888888877533       22479999987764

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.17  E-value=8e-06  Score=83.64  Aligned_cols=136  Identities=11%  Similarity=0.092  Sum_probs=89.9

Q ss_pred             chhhhhHHHHhhhhcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------------eC
Q psy450           29 YHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------------IR   96 (478)
Q Consensus        29 ~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------------ld   96 (478)
                      ...++.+|+ .++...|+|||||     +.....+.++..|+                .+.+.||+            +|
T Consensus       253 e~~~~~~~~-~~~~~~~~iLfiD-----~~~~a~~~L~~~L~----------------~g~v~vI~at~~~e~~~~~~~~  310 (468)
T 3pxg_A          253 EDRLKKVMD-EIRQAGNIILFID-----AAIDASNILKPSLA----------------RGELQCIGATTLDEYRKYIEKD  310 (468)
T ss_dssp             CTTHHHHHH-HHHTCCCCEEEEC-----C--------CCCTT----------------SSSCEEEEECCTTTTHHHHTTC
T ss_pred             HHHHHHHHH-HHHhcCCeEEEEe-----CchhHHHHHHHhhc----------------CCCEEEEecCCHHHHHHHhhcC
Confidence            347889999 8998899999999     22223333443333                34577777            68


Q ss_pred             HhHHhccccEEEeCCCCHHHHHHHHHHHHhhcC--CCCCCChhHHHHHHHhcCCCC-----HHHHHHHHHHHHHHHHHhh
Q psy450           97 KQIQKLFLKTINVLPLTEPERRLLIQYQLDCLG--GDYGFDASLVEYLSSVTSGFE-----RHDLTCLVRLSVKNKMLKQ  169 (478)
Q Consensus        97 ~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~--~~~~~~~~~i~~la~~t~G~s-----~~di~~l~~~a~~~a~~~~  169 (478)
                      +++.|||. .|.|+.|+.+++.+||+.+...+.  .....+.+.+..++..+.+|.     +.....++++|+..+..+.
T Consensus       311 ~al~~Rf~-~i~v~~p~~e~~~~iL~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~ai~ll~~a~~~~~~~~  389 (468)
T 3pxg_A          311 AALERRFQ-PIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGSKVRLRS  389 (468)
T ss_dssp             SHHHHSEE-EEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhCc-cceeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCCcHHHHHHHHHHHHHHhcc
Confidence            99999997 599999999999999999886632  123445555577777765554     4477788888887665432


Q ss_pred             cCCCCCCCHHHHHHHHHHhh
Q psy450          170 GINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       170 ~~~~~~it~~d~~~a~~~~~  189 (478)
                        ...+-...++...+..+.
T Consensus       390 --~~~p~~i~~l~~~i~~l~  407 (468)
T 3pxg_A          390 --FTTPPNLKELEQKLDEVR  407 (468)
T ss_dssp             --TSCCSSTHHHHHHHHHHH
T ss_pred             --CCCchHHHHHHHHHHHHH
Confidence              223444455655555554

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.16  E-value=8.1e-06  Score=98.81  Aligned_cols=138  Identities=20%  Similarity=0.243  Sum_probs=87.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH-hCCcEEEEechhhhhhhhcchHHHHHHHHHHh----H------------hCCCeE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE-CRMNFLAVKGPELLNKYIGQSEENIRNVFLKA----R------------SAAPCV  296 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~-~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a----~------------~~~p~i  296 (478)
                      .+++||+||||||||.++...... .+.+++.++++...      +...+...++..    +            .+...|
T Consensus      1304 ~~pvLL~GptGtGKT~li~~~L~~l~~~~~~~infS~~T------ta~~l~~~~e~~~e~~~~~~~G~~~~p~~~Gk~~V 1377 (3245)
T 3vkg_A         1304 HRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSAT------TPELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLV 1377 (3245)
T ss_dssp             TCCCEEESSTTSSHHHHHHHHGGGCTTEEEEEECCCTTC------CHHHHHHHHHHHEEEEECTTSCEEEEESSTTCEEE
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhCCCCceEEEEeeCCC------CHHHHHHHHhhcceEEeccCCCcccCCCcCCceEE
Confidence            456999999999999877654443 36667778876532      223333333321    0            122369


Q ss_pred             EEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC-------CCCCeEEEEEcCCCC-----CCCccccCCCCCCeE
Q psy450          297 VFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH-------TSQDVFILGATNRVD-----LLDPAILRPGRLDKS  364 (478)
Q Consensus       297 l~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-------~~~~v~vI~ttn~~~-----~ld~~l~~~~Rf~~~  364 (478)
                      +||||++.-.....+    +...-+++.+++..-.-+.       .-.++.+|+|.|.|.     .++++++|  ||. .
T Consensus      1378 lFiDDiNmp~~D~yG----tQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r--~F~-v 1450 (3245)
T 3vkg_A         1378 VFCDEINLPSTDKYG----TQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLR--HAP-I 1450 (3245)
T ss_dssp             EEETTTTCCCCCTTS----CCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHT--TCC-E
T ss_pred             EEecccCCCCccccc----cccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHh--hce-E
Confidence            999999875543221    1122345555554311111       123588999999884     58999998  885 5


Q ss_pred             EEeCCCCCHHHHHHHHHHHHh
Q psy450          365 LYVGLYEDRISQLGVLKAVVR  385 (478)
Q Consensus       365 i~~~~pp~~~~r~~il~~~~~  385 (478)
                      ++++. |+.+....|+..++.
T Consensus      1451 i~i~~-ps~esL~~If~til~ 1470 (3245)
T 3vkg_A         1451 LLVDF-PSTSSLTQIYGTFNR 1470 (3245)
T ss_dssp             EECCC-CCHHHHHHHHHHHHH
T ss_pred             EEeCC-CCHHHHHHHHHHHHH
Confidence            88987 689999999876654

>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=98.16  E-value=1.2e-05  Score=71.01  Aligned_cols=28  Identities=25%  Similarity=0.510  Sum_probs=23.9

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      .+.|.||+|+||||+++.++..++..+.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i~~~   29 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGKRAI   29 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGGGEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcCC
Confidence            4789999999999999999998865443

>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=98.15  E-value=1.7e-05  Score=71.77  Aligned_cols=119  Identities=13%  Similarity=0.052  Sum_probs=81.3

Q ss_pred             cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-----eCHhHHhccccEEEeCCCCHHHH
Q psy450           43 YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-----IRKQIQKLFLKTINVLPLTEPER  117 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-----ld~al~rRf~~~i~~~~P~~~~r  117 (478)
                      ..++||||||+|.+.... .+.++..++..            ..+..+++++     +++++.+||. .++++.|+.+++
T Consensus       101 ~~~~vliiDe~~~l~~~~-~~~l~~~l~~~------------~~~~~~i~~~~~~~~~~~~l~~r~~-~i~~~~~~~~~~  166 (226)
T 2chg_A          101 APFKIIFLDEADALTADA-QAALRRTMEMY------------SKSCRFILSCNYVSRIIEPIQSRCA-VFRFKPVPKEAM  166 (226)
T ss_dssp             CSCEEEEEETGGGSCHHH-HHHHHHHHHHT------------TTTEEEEEEESCGGGSCHHHHTTSE-EEECCCCCHHHH
T ss_pred             cCceEEEEeChhhcCHHH-HHHHHHHHHhc------------CCCCeEEEEeCChhhcCHHHHHhCc-eeecCCCCHHHH
Confidence            568999999999987543 34455555521            1122233333     8999999997 899999999999


Q ss_pred             HHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHH
Q psy450          118 RLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYD  186 (478)
Q Consensus       118 ~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~  186 (478)
                      .++++.++...+  ...+.+.++.++..+.| +...+.++++.++..        ...|+.+|+..++.
T Consensus       167 ~~~l~~~~~~~~--~~~~~~~~~~l~~~~~g-~~r~l~~~l~~~~~~--------~~~I~~~~v~~~~~  224 (226)
T 2chg_A          167 KKRLLEICEKEG--VKITEDGLEALIYISGG-DFRKAINALQGAAAI--------GEVVDADTIYQITA  224 (226)
T ss_dssp             HHHHHHHHHHHT--CCBCHHHHHHHHHHHTT-CHHHHHHHHHHHHHT--------CSCBCHHHHHHHHH
T ss_pred             HHHHHHHHHHcC--CCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHhc--------CceecHHHHHHHhc
Confidence            999999987653  23445555888887765 444455555444332        15799999988765

>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=98.11  E-value=1.3e-05  Score=77.62  Aligned_cols=137  Identities=13%  Similarity=0.019  Sum_probs=91.3

Q ss_pred             cCCCeEEEecccccccchhhHhhhccccccccccccchhhhc------cCCCcEEEEe-------eCHhHHhccccEEEe
Q psy450           43 YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQC------KQQHKKKLVL-------IRKQIQKLFLKTINV  109 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~------~~~~~v~via-------ld~al~rRf~~~i~~  109 (478)
                      ..+++|||||+|.+.... ...++..++......  ....+.      ....++.+|+       +++++++||+..+.+
T Consensus        89 ~~~~~l~lDEi~~l~~~~-~~~L~~~l~~~~~~~--v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~~i~l  165 (324)
T 1hqc_A           89 EEGDILFIDEIHRLSRQA-EEHLYPAMEDFVMDI--VIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHL  165 (324)
T ss_dssp             CTTCEEEETTTTSCCHHH-HHHHHHHHHHSEEEE--CCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSCEEEC
T ss_pred             cCCCEEEEECCcccccch-HHHHHHHHHhhhhHH--hccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccEEEec
Confidence            568999999999987543 334444444311000  000000      0112355555       889999999999999


Q ss_pred             CCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          110 LPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       110 ~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      +.|+.+++.++++.++...+  ...+.+.++.++..+.|. ...+.++++.+...+..   .....++.+++..++...
T Consensus       166 ~~~~~~e~~~~l~~~~~~~~--~~~~~~~~~~l~~~~~G~-~r~l~~~l~~~~~~a~~---~~~~~i~~~~~~~~~~~~  238 (324)
T 1hqc_A          166 EYYTPEELAQGVMRDARLLG--VRITEEAALEIGRRSRGT-MRVAKRLFRRVRDFAQV---AGEEVITRERALEALAAL  238 (324)
T ss_dssp             CCCCHHHHHHHHHHHHHTTT--CCCCHHHHHHHHHHSCSC-HHHHHHHHHHHTTTSTT---TSCSCCCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHccCC-HHHHHHHHHHHHHHHHH---hcCCCCCHHHHHHHHHHh
Confidence            99999999999999997763  345556668999998664 46777777766544321   135578999988877654

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.10  E-value=3.1e-05  Score=76.60  Aligned_cols=140  Identities=11%  Similarity=0.159  Sum_probs=94.8

Q ss_pred             hhhHHHHhhhhc-CCCeEEEecccccccc---hhhHhhhccccccccccccchhhhccCCCcEEEEe----------eCH
Q psy450           32 LNDIVKINLKKY-NLDIFKYDEVNYLCNV---KYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----------IRK   97 (478)
Q Consensus        32 ~~~if~~~a~~~-~p~ilfiDe~d~i~~~---r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----------ld~   97 (478)
                      ++.++. ..+.. .|+||||||++.+...   ..+..++..++..             ...++.+|+          +++
T Consensus       116 ~~~l~~-~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~-------------~~~~~~~I~~~~~~~~~~~~~~  181 (386)
T 2qby_A          116 YRRLVK-AVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEV-------------NKSKISFIGITNDVKFVDLLDP  181 (386)
T ss_dssp             HHHHHH-HHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSC-------------CC--EEEEEEESCGGGGGGCTT
T ss_pred             HHHHHH-HHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhc-------------CCCeEEEEEEECCCChHhhhCH
Confidence            455554 44433 3999999999999853   3555666555531             223344444          678


Q ss_pred             hHHhccc-cEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcC---CCCHHHHHHHHHHHHHHHHHhhcCCC
Q psy450           98 QIQKLFL-KTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTS---GFERHDLTCLVRLSVKNKMLKQGINK  173 (478)
Q Consensus        98 al~rRf~-~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~---G~s~~di~~l~~~a~~~a~~~~~~~~  173 (478)
                      .+.+||. +.+.++.|+.++..++++.++.........+.+.++.++..+.   | +...+..+++.++..+..+   +.
T Consensus       182 ~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G-~~r~~~~ll~~a~~~a~~~---~~  257 (386)
T 2qby_A          182 RVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHG-DARRALDLLRVSGEIAERM---KD  257 (386)
T ss_dssp             HHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHHHHHT---TC
T ss_pred             HHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHhc---CC
Confidence            8888986 4899999999999999999886422123445555678887776   4 4455666788777665432   45


Q ss_pred             CCCCHHHHHHHHHHhh
Q psy450          174 RDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       174 ~~it~~d~~~a~~~~~  189 (478)
                      ..++.+++..++....
T Consensus       258 ~~i~~~~v~~a~~~~~  273 (386)
T 2qby_A          258 TKVKEEYVYMAKEEIE  273 (386)
T ss_dssp             SSCCHHHHHHHHHHHH
T ss_pred             CccCHHHHHHHHHHHh
Confidence            6899999999888764

>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=98.08  E-value=5e-06  Score=78.69  Aligned_cols=114  Identities=16%  Similarity=0.169  Sum_probs=73.2

Q ss_pred             hhhhhHHHHhhhhcCCCeEEEecccccccch---------hhHhhhccccccccccccchhhhccCCCcEEEEe------
Q psy450           30 HHLNDIVKINLKKYNLDIFKYDEVNYLCNVK---------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------   94 (478)
Q Consensus        30 ~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r---------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------   94 (478)
                      ..++.+|+ .+...+++||||||+|.+++.+         .++.+...++...           .....++||+      
T Consensus       111 ~~~~~~~~-~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~-----------~~~~~~~ii~ttn~~~  178 (272)
T 1d2n_A          111 QAMKKIFD-DAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAP-----------PQGRKLLIIGTTSRKD  178 (272)
T ss_dssp             HHHHHHHH-HHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCC-----------STTCEEEEEEEESCHH
T ss_pred             HHHHHHHH-HHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCcc-----------CCCCCEEEEEecCChh
Confidence            36788898 8888889999999999996432         3444444444321           2345677777      


Q ss_pred             -eCH-hHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCC----CHHHHHHHHHHH
Q psy450           95 -IRK-QIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGF----ERHDLTCLVRLS  161 (478)
Q Consensus        95 -ld~-al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~----s~~di~~l~~~a  161 (478)
                       +|+ .+++||+..|++|.++.  |.+|.+......  .  .+.+.+..++..+.|+    +..++.++++.|
T Consensus       179 ~l~~~~l~~rf~~~i~~p~l~~--r~~i~~i~~~~~--~--~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a  245 (272)
T 1d2n_A          179 VLQEMEMLNAFSTTIHVPNIAT--GEQLLEALELLG--N--FKDKERTTIAQQVKGKKVWIGIKKLLMLIEMS  245 (272)
T ss_dssp             HHHHTTCTTTSSEEEECCCEEE--HHHHHHHHHHHT--C--SCHHHHHHHHHHHTTSEEEECHHHHHHHHHHH
T ss_pred             hcchhhhhcccceEEcCCCccH--HHHHHHHHHhcC--C--CCHHHHHHHHHHhcCCCccccHHHHHHHHHHH
Confidence             666 67789999988866654  344444433332  2  2344459999999997    445555555443

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.08  E-value=5.4e-05  Score=75.09  Aligned_cols=134  Identities=12%  Similarity=0.172  Sum_probs=89.0

Q ss_pred             hhhhHHHHhhhhcCCCeEEEecccccccch---h-hHhhhccccccccccccchhhhccCCCcEEEEe----------eC
Q psy450           31 HLNDIVKINLKKYNLDIFKYDEVNYLCNVK---Y-VYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----------IR   96 (478)
Q Consensus        31 ~~~~if~~~a~~~~p~ilfiDe~d~i~~~r---~-~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----------ld   96 (478)
                      .+..++. .++...+ ||||||+|.+...+   . +..++...                  .++.+|+          ++
T Consensus       122 ~~~~l~~-~l~~~~~-vlilDEi~~l~~~~~~~~~l~~l~~~~------------------~~~~iI~~t~~~~~~~~l~  181 (384)
T 2qby_B          122 YIDKIKN-GTRNIRA-IIYLDEVDTLVKRRGGDIVLYQLLRSD------------------ANISVIMISNDINVRDYME  181 (384)
T ss_dssp             HHHHHHH-HHSSSCE-EEEEETTHHHHHSTTSHHHHHHHHTSS------------------SCEEEEEECSSTTTTTTSC
T ss_pred             HHHHHHH-HhccCCC-EEEEECHHHhccCCCCceeHHHHhcCC------------------cceEEEEEECCCchHhhhC
Confidence            3555554 4444444 99999999997643   2 33333221                  2344444          68


Q ss_pred             HhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCC--HHHHHHHHHHHHHHHHHhhcCCCC
Q psy450           97 KQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFE--RHDLTCLVRLSVKNKMLKQGINKR  174 (478)
Q Consensus        97 ~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s--~~di~~l~~~a~~~a~~~~~~~~~  174 (478)
                      +++.+||...++|+.|+.++..+|++.++...-.....+.+.++.+++.+.+.+  ...+..+++.|...+.     +..
T Consensus       182 ~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~-----~~~  256 (384)
T 2qby_B          182 PRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLAS-----GGG  256 (384)
T ss_dssp             HHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTT-----SSS
T ss_pred             HHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhc-----CCC
Confidence            999999988999999999999999999886411122344445588888876332  2344456666655432     456


Q ss_pred             CCCHHHHHHHHHHhh
Q psy450          175 DLQKEDFQQIYDDLQ  189 (478)
Q Consensus       175 ~it~~d~~~a~~~~~  189 (478)
                      .|+.+++..++....
T Consensus       257 ~i~~~~v~~~~~~~~  271 (384)
T 2qby_B          257 IIRKEHVDKAIVDYE  271 (384)
T ss_dssp             CCCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHh
Confidence            899999999888764

>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=98.04  E-value=2e-05  Score=77.21  Aligned_cols=144  Identities=15%  Similarity=0.038  Sum_probs=91.1

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe--------eCHhHHhccccEEEeCCC-CH
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL--------IRKQIQKLFLKTINVLPL-TE  114 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via--------ld~al~rRf~~~i~~~~P-~~  114 (478)
                      .++||||||+|.+... ..+.++..++.-...-... .........+++|+        +++++++||+..++++.| +.
T Consensus       144 ~~~vl~iDEi~~l~~~-~~~~Ll~~le~~~~~~~~~-g~~~~~~~~~~li~~~n~~~~~l~~~L~~R~~~~~~l~~~~~~  221 (350)
T 1g8p_A          144 NRGYLYIDECNLLEDH-IVDLLLDVAQSGENVVERD-GLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDV  221 (350)
T ss_dssp             TTEEEEETTGGGSCHH-HHHHHHHHHHHSEEEECCT-TCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSH
T ss_pred             CCCEEEEeChhhCCHH-HHHHHHHHHhcCceEEEec-ceEEeeCCceEEEEEeCCCCCCCCHHHHhhcceEEEcCCCCcH
Confidence            4789999999998654 3455666555310000000 00011123567776        899999999999999999 68


Q ss_pred             HHHHHHHHHHHh---------------------------hcCCCCCCChhHHHHHHHhcCC---CCHHHHHHHHHHHHHH
Q psy450          115 PERRLLIQYQLD---------------------------CLGGDYGFDASLVEYLSSVTSG---FERHDLTCLVRLSVKN  164 (478)
Q Consensus       115 ~~r~~il~~~~~---------------------------~~~~~~~~~~~~i~~la~~t~G---~s~~di~~l~~~a~~~  164 (478)
                      ++|.+|++..+.                           .....+..+.+.++.++....+   -+...+..+++.|...
T Consensus       222 ~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ls~~~~~~l~~~~~~~~~~~~R~~~~ll~~a~~~  301 (350)
T 1g8p_A          222 ETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARAL  301 (350)
T ss_dssp             HHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCchhhccccccchHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHH
Confidence            888899876321                           1001123444445666665443   2568888888887776


Q ss_pred             HHHhhcCCCCCCCHHHHHHHHHHhhhhc
Q psy450          165 KMLKQGINKRDLQKEDFQQIYDDLQSRY  192 (478)
Q Consensus       165 a~~~~~~~~~~it~~d~~~a~~~~~~~~  192 (478)
                      +..+   +...|+.+|+..++..+....
T Consensus       302 A~~~---~~~~v~~~~v~~a~~~~l~~r  326 (350)
T 1g8p_A          302 AALE---GATAVGRDHLKRVATMALSHR  326 (350)
T ss_dssp             HHHT---TCSBCCHHHHHHHHHHHHGGG
T ss_pred             HHHc---CCCcCCHHHHHHHHHHHHhhc
Confidence            6543   445699999999988775543

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.03  E-value=1.7e-05  Score=80.45  Aligned_cols=138  Identities=9%  Similarity=0.091  Sum_probs=91.8

Q ss_pred             hhhhhHHHHhhhh----cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe---------eC
Q psy450           30 HHLNDIVKINLKK----YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IR   96 (478)
Q Consensus        30 ~~~~~if~~~a~~----~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld   96 (478)
                      ..++.+|+ .++.    ..++||||||+|.+.... .+.++..++.                +.+++|+         ++
T Consensus        89 ~~ir~~~~-~a~~~~~~~~~~iLfIDEI~~l~~~~-q~~LL~~le~----------------~~v~lI~att~n~~~~l~  150 (447)
T 3pvs_A           89 KEIREAIE-RARQNRNAGRRTILFVDEVHRFNKSQ-QDAFLPHIED----------------GTITFIGATTENPSFELN  150 (447)
T ss_dssp             HHHHHHHH-HHHHHHHTTCCEEEEEETTTCC-------CCHHHHHT----------------TSCEEEEEESSCGGGSSC
T ss_pred             HHHHHHHH-HHHHhhhcCCCcEEEEeChhhhCHHH-HHHHHHHHhc----------------CceEEEecCCCCcccccC
Confidence            35667776 6553    468999999999986543 3445544541                3356665         89


Q ss_pred             HhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCC-----CCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcC
Q psy450           97 KQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGG-----DYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGI  171 (478)
Q Consensus        97 ~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~-----~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~  171 (478)
                      +++++|+. .+.++.|+.+++.++++.++.....     ....+.+.++.++..+.| +...+.++++.++..+.. ...
T Consensus       151 ~aL~sR~~-v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~G-d~R~lln~Le~a~~~a~~-~~~  227 (447)
T 3pvs_A          151 SALLSRAR-VYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNG-DARRALNTLEMMADMAEV-DDS  227 (447)
T ss_dssp             HHHHTTEE-EEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCS-CHHHHHHHHHHHHHHSCB-CTT
T ss_pred             HHHhCcee-EEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCC-CHHHHHHHHHHHHHhccc-ccC
Confidence            99999995 7889999999999999999976321     233455666888888665 556667777766554320 011


Q ss_pred             CCCCCCHHHHHHHHHHh
Q psy450          172 NKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       172 ~~~~it~~d~~~a~~~~  188 (478)
                      +...|+.+++..++...
T Consensus       228 ~~~~It~e~v~~~l~~~  244 (447)
T 3pvs_A          228 GKRVLKPELLTEIAGER  244 (447)
T ss_dssp             SCEECCHHHHHHHHTCC
T ss_pred             CCCccCHHHHHHHHhhh
Confidence            33579999998887643

>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=97.99  E-value=2.8e-05  Score=72.67  Aligned_cols=27  Identities=44%  Similarity=0.700  Sum_probs=24.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      .++++|+||||||||++|.++|+.++.
T Consensus       104 ~n~~~l~GppgtGKt~~a~ala~~~~l  130 (267)
T 1u0j_A          104 RNTIWLFGPATTGKTNIAEAIAHTVPF  130 (267)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHSSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhhhcc
Confidence            467999999999999999999997654

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.98  E-value=3.6e-05  Score=93.30  Aligned_cols=124  Identities=25%  Similarity=0.248  Sum_probs=83.7

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS  315 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~  315 (478)
                      +..+.||+|||||.+++.+|+.+|.+++.++|++-      .....+..+|.-+... .+-.++|||+.+....      
T Consensus       606 gg~~~GPaGtGKTet~k~La~~lgr~~~vfnC~~~------~d~~~~g~i~~G~~~~-GaW~cfDEfNrl~~~v------  672 (3245)
T 3vkg_A          606 GGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEG------FDLQAMSRIFVGLCQC-GAWGCFDEFNRLEERI------  672 (3245)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTCCEEEEECSSC------CCHHHHHHHHHHHHHH-TCEEEEETTTSSCHHH------
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCCCC------CCHHHHHHHHhhHhhc-CcEEEehhhhcCCHHH------
Confidence            46799999999999999999999999999999753      2334455566555443 2588999999986321      


Q ss_pred             chhHHHHHHHHHH--------h-----hc-C--CCCCCCeEEEEEcCC----CCCCCccccCCCCCCeEEEeCCCCCHHH
Q psy450          316 SGVMDRVVSQLLA--------E-----MD-G--VHTSQDVFILGATNR----VDLLDPAILRPGRLDKSLYVGLYEDRIS  375 (478)
Q Consensus       316 ~~~~~~~~~~ll~--------~-----l~-~--~~~~~~v~vI~ttn~----~~~ld~~l~~~~Rf~~~i~~~~pp~~~~  375 (478)
                          -.++.+.+.        .     +. |  +.-...+.|++|.|.    ...|++.++.  || +.+.+.. |+.+.
T Consensus       673 ----LSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~--lF-r~v~m~~-Pd~~~  744 (3245)
T 3vkg_A          673 ----LSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKK--LF-RSMAMIK-PDREM  744 (3245)
T ss_dssp             ----HHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHT--TE-EEEECCS-CCHHH
T ss_pred             ----HHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHh--hc-EEEEEeC-CCHHH
Confidence                122222111        1     11 1  222446778888884    3568999998  88 5588887 68776


Q ss_pred             HHHHH
Q psy450          376 QLGVL  380 (478)
Q Consensus       376 r~~il  380 (478)
                      ..+|+
T Consensus       745 i~ei~  749 (3245)
T 3vkg_A          745 IAQVM  749 (3245)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65554

>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=97.97  E-value=0.0002  Score=70.96  Aligned_cols=135  Identities=8%  Similarity=0.025  Sum_probs=92.1

Q ss_pred             cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe--------eCHhHHhcccc-EEEeCCCC
Q psy450           43 YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL--------IRKQIQKLFLK-TINVLPLT  113 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via--------ld~al~rRf~~-~i~~~~P~  113 (478)
                      ..|.||||||+|.+ .....+.++..++.....        ...+-.+++++        +++.+.+||.. .+.|+.++
T Consensus       124 ~~~~vlilDE~~~l-~~~~~~~L~~~~~~~~~~--------~~~~~~iI~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~  194 (389)
T 1fnn_A          124 DLYMFLVLDDAFNL-APDILSTFIRLGQEADKL--------GAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYT  194 (389)
T ss_dssp             TCCEEEEEETGGGS-CHHHHHHHHHHTTCHHHH--------SSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCB
T ss_pred             CCeEEEEEECcccc-chHHHHHHHHHHHhCCCC--------CcCCEEEEEEECCchHHHHhCHHhhhcCCCceEEeCCCC
Confidence            45899999999998 445566666666532100        00122233333        78888889975 89999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCC--------CCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Q psy450          114 EPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSG--------FERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIY  185 (478)
Q Consensus       114 ~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G--------~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~  185 (478)
                      .++..++++..+.........+.+.++.++..+.+        -....+..+++.|+..+..+   +...++.+++..+.
T Consensus       195 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~~a~~~---~~~~i~~~~v~~~~  271 (389)
T 1fnn_A          195 KDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQN---GRKHIAPEDVRKSS  271 (389)
T ss_dssp             HHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHHHT---TCSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHHHHHHh---CCCCcCHHHHHHHH
Confidence            99999999998865211223455666889998842        24566777888877766533   45679999998888


Q ss_pred             HHhh
Q psy450          186 DDLQ  189 (478)
Q Consensus       186 ~~~~  189 (478)
                      ....
T Consensus       272 ~~~~  275 (389)
T 1fnn_A          272 KEVL  275 (389)
T ss_dssp             HHHS
T ss_pred             HHHh
Confidence            7653

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=97.95  E-value=7.6e-05  Score=72.38  Aligned_cols=105  Identities=13%  Similarity=0.211  Sum_probs=75.1

Q ss_pred             CCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhccc--cEEEeCC
Q psy450           44 NLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLFL--KTINVLP  111 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf~--~~i~~~~  111 (478)
                      +++||||||++.+.+.+ ....++..++...           ..+..+++.+         +++++++||.  ..++++.
T Consensus        98 ~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~-----------~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~  166 (324)
T 1l8q_A           98 SVDLLLLDDVQFLSGKERTQIEFFHIFNTLY-----------LLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL  166 (324)
T ss_dssp             TCSEEEEECGGGGTTCHHHHHHHHHHHHHHH-----------HTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC
T ss_pred             CCCEEEEcCcccccCChHHHHHHHHHHHHHH-----------HCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC
Confidence            58999999999998753 3334444444321           2223344444         7899999997  6799999


Q ss_pred             CCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHH
Q psy450          112 LTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKN  164 (478)
Q Consensus       112 P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~  164 (478)
                       +.++|.+|++.++...+  ...+.+.++.++..+  -+..++..++..+...
T Consensus       167 -~~~e~~~il~~~~~~~~--~~l~~~~l~~l~~~~--g~~r~l~~~l~~~~~~  214 (324)
T 1l8q_A          167 -DNKTRFKIIKEKLKEFN--LELRKEVIDYLLENT--KNVREIEGKIKLIKLK  214 (324)
T ss_dssp             -CHHHHHHHHHHHHHHTT--CCCCHHHHHHHHHHC--SSHHHHHHHHHHHHHH
T ss_pred             -CHHHHHHHHHHHHHhcC--CCCCHHHHHHHHHhC--CCHHHHHHHHHHHHHc
Confidence             99999999999998763  345566669999998  4667777777766654

>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=97.85  E-value=0.00012  Score=71.59  Aligned_cols=141  Identities=13%  Similarity=0.094  Sum_probs=86.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CC-cEEEEechhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCcc-
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RM-NFLAVKGPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDS-  304 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~-~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~-  304 (478)
                      ++.+||+||+|+||++.++.+++.+   +. ++..+...       +  ...++++++.+.    -....|++|||+|. 
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-------~--~~~~~~l~~~~~~~plf~~~kvvii~~~~~k   88 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSID-------P--NTDWNAIFSLCQAMSLFASRQTLLLLLPENG   88 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECC-------T--TCCHHHHHHHHHHHHHCCSCEEEEEECCSSC
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEec-------C--CCCHHHHHHHhcCcCCccCCeEEEEECCCCC
Confidence            5679999999999999999998865   32 22222111       1  112334443332    24457999999988 


Q ss_pred             ccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC------CCCccccCCCCCCeEEEeCCCCCHHHHHH
Q psy450          305 LAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD------LLDPAILRPGRLDKSLYVGLYEDRISQLG  378 (478)
Q Consensus       305 l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~  378 (478)
                      +..             ...+.|+..++..  ..++++|.+++.++      .+.+++.+  |+ ..+.+.. ++..+...
T Consensus        89 l~~-------------~~~~aLl~~le~p--~~~~~~il~~~~~~~~~~~~k~~~~i~s--r~-~~~~~~~-l~~~~l~~  149 (343)
T 1jr3_D           89 PNA-------------AINEQLLTLTGLL--HDDLLLIVRGNKLSKAQENAAWFTALAN--RS-VQVTCQT-PEQAQLPR  149 (343)
T ss_dssp             CCT-------------THHHHHHHHHTTC--BTTEEEEEEESCCCTTTTTSHHHHHHTT--TC-EEEEECC-CCTTHHHH
T ss_pred             CCh-------------HHHHHHHHHHhcC--CCCeEEEEEcCCCChhhHhhHHHHHHHh--Cc-eEEEeeC-CCHHHHHH
Confidence            642             2456778888753  33445554454432      35567777  76 4677764 57777888


Q ss_pred             HHHHHHhcCCCCCCCC-HHHHHHhc
Q psy450          379 VLKAVVRKFKLSDDVS-LDSLVHHF  402 (478)
Q Consensus       379 il~~~~~~~~~~~~~~-~~~la~~~  402 (478)
                      +++..++..++.-+.+ +..++..+
T Consensus       150 ~l~~~~~~~g~~i~~~a~~~l~~~~  174 (343)
T 1jr3_D          150 WVAARAKQLNLELDDAANQVLCYCY  174 (343)
T ss_dssp             HHHHHHHHTTCEECHHHHHHHHHSS
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHh
Confidence            8888887766443322 44555543

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=97.83  E-value=6e-05  Score=73.78  Aligned_cols=111  Identities=21%  Similarity=0.279  Sum_probs=61.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhh----hhh-----------cc-hHHHHHHHHHHhHhCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLN----KYI-----------GQ-SEENIRNVFLKARSAAP  294 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~----~~~-----------g~-~~~~~~~~~~~a~~~~p  294 (478)
                      ..-++|+||||+|||+++..++..+   +.++++++..+...    ...           .. .+..+..+-...+...+
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~~~~~  140 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGEQALEIVDELVRSGVV  140 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHTSCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchHHHHHcCCchhhhhhhhccCHHHHHHHHHHHhhhcCC
Confidence            4558899999999999999998764   56777887643211    000           11 12222222222234678


Q ss_pred             eEEEEcCCccccCCC---CCCC-CCchhHHHHHHHHHHhhcCCCCCCCeEEEEE
Q psy450          295 CVVFFDELDSLAPRR---GQED-QSSGVMDRVVSQLLAEMDGVHTSQDVFILGA  344 (478)
Q Consensus       295 ~il~iDeid~l~~~~---~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~t  344 (478)
                      .+++||.+..+.+..   +..+ .+-....+.+.+++..+..+....++.||.+
T Consensus       141 dlvVIDSi~~l~~~~el~g~~G~~q~~~qar~la~~L~~L~~lak~~~~tVI~i  194 (356)
T 3hr8_A          141 DLIVVDSVAALVPRAEIEGAMGDMQVGLQARLMSQALRKIAGSVNKSKAVVIFT  194 (356)
T ss_dssp             SEEEEECTTTCCCHHHHTTCCCSSCSSHHHHHHHHHHHHHHHHHHTSSCEEEEE
T ss_pred             CeEEehHhhhhcChhhhcccchhhHHHHHHHHHHHHHHHHHHHHHhcCCEEEEE
Confidence            999999999988511   1111 1111223445555554444433445555544

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.82  E-value=0.00019  Score=75.55  Aligned_cols=166  Identities=15%  Similarity=0.096  Sum_probs=90.7

Q ss_pred             cccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHH-------hCCcEEEEechh-----hhhh
Q psy450          206 WEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE-------CRMNFLAVKGPE-----LLNK  273 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~-------~~~~~~~v~~~~-----l~~~  273 (478)
                      ...++|.+...+.|.+.+....    ...+.++++|++|+|||++|..+++.       +...++.++.+.     +...
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~~~~~~  198 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLK----GEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMK  198 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTST----TSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHHHHHHH
T ss_pred             CCeecccHHHHHHHHHHHhccc----CCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchHHHHHH
Confidence            4578999999999988765321    12556899999999999999998642       222344443321     1111


Q ss_pred             h------hc----------chHHHHHHHHHHh-Hh-CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC
Q psy450          274 Y------IG----------QSEENIRNVFLKA-RS-AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT  335 (478)
Q Consensus       274 ~------~g----------~~~~~~~~~~~~a-~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  335 (478)
                      .      .+          .....+...+... .. ..|.+|+||+++...                   .+..+     
T Consensus       199 l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~-------------------~l~~l-----  254 (591)
T 1z6t_A          199 LQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSW-------------------VLKAF-----  254 (591)
T ss_dssp             HHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHH-------------------HHHTT-----
T ss_pred             HHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHH-------------------HHHHh-----
Confidence            1      01          1112222222222 22 257899999986421                   11222     


Q ss_pred             CCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCC--CCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCC
Q psy450          336 SQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL--YEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQM  406 (478)
Q Consensus       336 ~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~--pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~  406 (478)
                      ..+..||.||+.+.....  ..    .....+..  |.+.++-.+++......-..........+++++ +|.
T Consensus       255 ~~~~~ilvTsR~~~~~~~--~~----~~~~~v~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~i~~~~-~G~  320 (591)
T 1z6t_A          255 DSQCQILLTTRDKSVTDS--VM----GPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKEC-KGS  320 (591)
T ss_dssp             CSSCEEEEEESCGGGGTT--CC----SCEEEEECCSSCCHHHHHHHHHHHHTSCGGGSCTHHHHHHHHH-TTC
T ss_pred             cCCCeEEEECCCcHHHHh--cC----CCceEeecCCCCCHHHHHHHHHHHhCCCcccccHHHHHHHHHh-CCC
Confidence            234567777776432110  01    22333432  467888888887766431111123467788887 554

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.80  E-value=7.3e-05  Score=73.66  Aligned_cols=75  Identities=27%  Similarity=0.360  Sum_probs=48.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh----hhc-----------chHHHHHHHHHHh-HhCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK----YIG-----------QSEENIRNVFLKA-RSAAP  294 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~----~~g-----------~~~~~~~~~~~~a-~~~~p  294 (478)
                      ...++++||||+|||++|..++...   +.++++++...-...    ..|           .+...+...+... +...+
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~~~~~  153 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVRSGAI  153 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCC
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHhcCCC
Confidence            4568899999999999999987654   567888875432111    111           1122223333332 34568


Q ss_pred             eEEEEcCCccccCC
Q psy450          295 CVVFFDELDSLAPR  308 (478)
Q Consensus       295 ~il~iDeid~l~~~  308 (478)
                      .+|+||.+..+.+.
T Consensus       154 ~lVVIDsl~~l~~~  167 (366)
T 1xp8_A          154 DVVVVDSVAALTPR  167 (366)
T ss_dssp             SEEEEECTTTCCCS
T ss_pred             CEEEEeChHHhccc
Confidence            89999999999853

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.80  E-value=0.00035  Score=63.45  Aligned_cols=163  Identities=17%  Similarity=0.198  Sum_probs=85.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEech--------hhhhhhhc----------c--hHHHHHHHHHHhHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP--------ELLNKYIG----------Q--SEENIRNVFLKARS  291 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~--------~l~~~~~g----------~--~~~~~~~~~~~a~~  291 (478)
                      -.+++.|+||+||||++-.+|..+   |..++.++..        .+......          .  .+..+..++    .
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q~~~~~~al~~gl~~~~~~~~~~~~~~~~e~~l~~~L----~   82 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGRAETEALLNGLPQQPLLRTEYRGMTLEEMDLDALL----K   82 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTCHHHHHHHTTSCBCCCEEEEETTEEEEECCHHHHH----H
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCChhHHHHhcCccccCcceeecCCcccccccHHHHH----h
Confidence            458999999999999999988776   6666655542        12111000          0  112222322    2


Q ss_pred             CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCC------------------CCCCCc
Q psy450          292 AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNR------------------VDLLDP  353 (478)
Q Consensus       292 ~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~------------------~~~ld~  353 (478)
                      ..|.++++||+-......   .........+ ..   .+.     .++=|++|+|-                  .+.++.
T Consensus        83 ~~pdlvIVDElG~~~~~~---~r~~~~~qDV-~~---~l~-----sgidVitT~Nlqh~esl~d~v~~itg~~v~e~vpd  150 (228)
T 2r8r_A           83 AAPSLVLVDELAHTNAPG---SRHTKRWQDI-QE---LLA-----AGIDVYTTVNVQHLESLNDQVRGITGVQVRETLPD  150 (228)
T ss_dssp             HCCSEEEESCTTCBCCTT---CSSSBHHHHH-HH---HHH-----TTCEEEEEEEGGGBGGGHHHHHHHHSCCCCSCBCH
T ss_pred             cCCCEEEEeCCCCCCccc---chhHHHHHHH-HH---HHc-----CCCCEEEEccccccccHHHHHHHHcCCCcCCcCcc
Confidence            468899999987642211   1111111111 11   121     23346777772                  144666


Q ss_pred             cccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Q psy450          354 AILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR  425 (478)
Q Consensus       354 ~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r  425 (478)
                      .+..  +.+....+++||+.     +++. ++.-++. .+..-..+..    -|+.+.+.++-.-|...+..+
T Consensus       151 ~~~~--~a~~v~lvD~~p~~-----l~~r-l~~g~vy~~~~~~~a~~~----~f~~~nl~~lrelal~~~a~~  211 (228)
T 2r8r_A          151 WVLQ--EAFDLVLIDLPPRE-----LLER-LRDGKVYVPEQARAAIDA----FFTQTNLTALREMAMQTAAAQ  211 (228)
T ss_dssp             HHHH--TCSEEEEBCCCHHH-----HHHH-HHTTCCCCTTCCHHHHHH----HCCHHHHHHHHHHHHHHHHTC
T ss_pred             HHHh--hCCeEEEecCCHHH-----HHHH-HHCCCccChhHHHHHHHh----hhchhhHHHHHHHHHHHHHHH
Confidence            6776  77888888886433     2232 3332222 2221222222    377777776655455444443

>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=97.79  E-value=6.4e-05  Score=65.92  Aligned_cols=37  Identities=22%  Similarity=0.272  Sum_probs=31.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      +..|+|+|+||+||||+++.+++.++.+++.++...+
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l~~~~~~~~~D~~   39 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSL   39 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCCeEEeccchH
Confidence            3468999999999999999999999998888765544

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=97.79  E-value=5.7e-05  Score=72.07  Aligned_cols=78  Identities=23%  Similarity=0.319  Sum_probs=49.3

Q ss_pred             CCCCceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhhh----hhhc-----------chHHHH-HHHHHH-
Q psy450          231 GLKRSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELLN----KYIG-----------QSEENI-RNVFLK-  288 (478)
Q Consensus       231 ~~~~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~~----~~~g-----------~~~~~~-~~~~~~-  288 (478)
                      |.++.-++++||||+|||+++-.++...     +..+++++..+-..    ...|           .+...+ ..+.+. 
T Consensus        25 Gl~~GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~ra~~lGvd~d~llv~~~~~~E~~~l~i~~~l  104 (333)
T 3io5_A           25 GMQSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAYLRSMGVDPERVIHTPVQSLEQLRIDMVNQL  104 (333)
T ss_dssp             CBCSEEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHHHHHTTCCGGGEEEEECSBHHHHHHHHHHHH
T ss_pred             CCcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHHHHHhCCCHHHeEEEcCCCHHHHHHHHHHHH
Confidence            4554457899999999999987776543     56788887643211    1111           122222 222222 


Q ss_pred             --hHhCCCeEEEEcCCccccCC
Q psy450          289 --ARSAAPCVVFFDELDSLAPR  308 (478)
Q Consensus       289 --a~~~~p~il~iDeid~l~~~  308 (478)
                        .+...|.+|+||-+..+.++
T Consensus       105 ~~i~~~~~~lvVIDSI~aL~~~  126 (333)
T 3io5_A          105 DAIERGEKVVVFIDSLGNLASK  126 (333)
T ss_dssp             HTCCTTCCEEEEEECSTTCBCC
T ss_pred             HHhhccCceEEEEecccccccc
Confidence              35568999999999999853

>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=97.79  E-value=0.00032  Score=80.31  Aligned_cols=168  Identities=15%  Similarity=0.080  Sum_probs=95.6

Q ss_pred             cccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh-------CCcEEEEechhh-----h--
Q psy450          206 WEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC-------RMNFLAVKGPEL-----L--  271 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~-------~~~~~~v~~~~l-----~--  271 (478)
                      ...++|.+...+.|.+.+....    ..++-+.|+|+.|+|||+||+.+++..       ...++.++.+..     .  
T Consensus       123 ~~~~vgR~~~~~~l~~~l~~~~----~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~  198 (1249)
T 3sfz_A          123 PVIFVTRKKLVHAIQQKLWKLN----GEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK  198 (1249)
T ss_dssp             CSSCCCCHHHHHHHHHHHHTTT----TSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHH
T ss_pred             CceeccHHHHHHHHHHHHhhcc----CCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHH
Confidence            4568999999999988775332    125568899999999999999887652       223445543221     1  


Q ss_pred             -----hhh---------hcchHHHHHHHHHHhHhCC--CeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC
Q psy450          272 -----NKY---------IGQSEENIRNVFLKARSAA--PCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT  335 (478)
Q Consensus       272 -----~~~---------~g~~~~~~~~~~~~a~~~~--p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  335 (478)
                           ...         .......+...+.......  +.+|+||+++...                      .++.+  
T Consensus       199 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~----------------------~~~~~--  254 (1249)
T 3sfz_A          199 LQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPW----------------------VLKAF--  254 (1249)
T ss_dssp             HHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHH----------------------HHTTT--
T ss_pred             HHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHH----------------------HHHhh--
Confidence                 000         0112223333333333333  7899999987431                      11112  


Q ss_pred             CCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCC
Q psy450          336 SQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQM  406 (478)
Q Consensus       336 ~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~  406 (478)
                      ..+..||.||+.+...... .   .....+.++.+.+.++-.++|........-.......++++++ +|.
T Consensus       255 ~~~~~ilvTtR~~~~~~~~-~---~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~~~~~~~~i~~~~-~gl  320 (1249)
T 3sfz_A          255 DNQCQILLTTRDKSVTDSV-M---GPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKEC-KGS  320 (1249)
T ss_dssp             CSSCEEEEEESSTTTTTTC-C---SCBCCEECCSSCCHHHHHHHHHHHHTSCSTTCCTHHHHHHHHT-TTC
T ss_pred             cCCCEEEEEcCCHHHHHhh-c---CCceEEEecCCCCHHHHHHHHHHhhCCChhhCcHHHHHHHHHh-CCC
Confidence            2345678788876442211 1   1234555553357788888887766433222223367788887 443

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.78  E-value=6.3e-05  Score=68.82  Aligned_cols=34  Identities=26%  Similarity=0.278  Sum_probs=26.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      +..++|.||+|+|||++++.++...   +.++++++.
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~~   59 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTT   59 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEES
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEEc
Confidence            4458899999999999999998654   556666653

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=97.76  E-value=0.00048  Score=67.10  Aligned_cols=139  Identities=10%  Similarity=0.080  Sum_probs=91.3

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccc----cccchhhhccCCCcEEEEe-------eCHhHHhccccEEEeCCC
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVK----SNETKDQQCKQQHKKKLVL-------IRKQIQKLFLKTINVLPL  112 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~----~~~~~~~~~~~~~~v~via-------ld~al~rRf~~~i~~~~P  112 (478)
                      .++|+||||++.+.+.. ...++..+......    .......-...-..+.+++       +++++++||...+.++.|
T Consensus       102 ~~~v~~iDE~~~l~~~~-~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~~~~~Ls~~l~sR~~l~~~Ld~~  180 (334)
T 1in4_A          102 RGDVLFIDEIHRLNKAV-EELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFY  180 (334)
T ss_dssp             TTCEEEEETGGGCCHHH-HHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEECCCC
T ss_pred             CCCEEEEcchhhcCHHH-HHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecCCcccCCHHHHHhcCceeeCCCC
Confidence            57899999999997632 22233222211000    0000000000112345555       899999999988999999


Q ss_pred             CHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          113 TEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       113 ~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      +.+++.+|++......+  ...+.+.+..++.++.|. ...+..+++.+...+..+   +...|+.+++..++..+.
T Consensus       181 ~~~~l~~iL~~~~~~~~--~~~~~~~~~~ia~~~~G~-~R~a~~ll~~~~~~a~~~---~~~~It~~~v~~al~~~~  251 (334)
T 1in4_A          181 TVKELKEIIKRAASLMD--VEIEDAAAEMIAKRSRGT-PRIAIRLTKRVRDMLTVV---KADRINTDIVLKTMEVLN  251 (334)
T ss_dssp             CHHHHHHHHHHHHHHTT--CCBCHHHHHHHHHTSTTC-HHHHHHHHHHHHHHHHHH---TCSSBCHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHcC--CCcCHHHHHHHHHhcCCC-hHHHHHHHHHHHHHHHHc---CCCCcCHHHHHHHHHHhC
Confidence            99999999999887663  344555568999988874 477788888777666533   456799999999988763

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=97.74  E-value=9.3e-05  Score=75.95  Aligned_cols=132  Identities=10%  Similarity=0.091  Sum_probs=85.8

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe---eCH------hHHhccccEEEeCCCCH
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---IRK------QIQKLFLKTINVLPLTE  114 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---ld~------al~rRf~~~i~~~~P~~  114 (478)
                      .++|||||||+.+ +.+..+.++..|+.-....   ..........++|+|   +++      |+++||...++++.|+.
T Consensus       109 ~~~IL~IDEI~r~-~~~~q~~LL~~lee~~v~i---~G~~~~~~~~~iI~ATN~lpe~~~~~~aLldRF~~~i~v~~p~~  184 (500)
T 3nbx_X          109 EAEIVFLDEIWKA-GPAILNTLLTAINERQFRN---GAHVEKIPMRLLVAASNELPEADSSLEALYDRMLIRLWLDKVQD  184 (500)
T ss_dssp             GCSEEEEESGGGC-CHHHHHHHHHHHHSSEEEC---SSSEEECCCCEEEEEESSCCCTTCTTHHHHTTCCEEEECCSCCC
T ss_pred             cceeeeHHhHhhh-cHHHHHHHHHHHHHHhccC---CCCcCCcchhhhhhccccCCCccccHHHHHHHHHHHHHHHHhhh
Confidence            5789999999875 4556777887776421110   000112233466677   555      99999999999999986


Q ss_pred             -HHHHHHHHHHHhhcCC---------------------CCCCChhHHHHHHHhc---------CCCCHHHHHHHHHHHHH
Q psy450          115 -PERRLLIQYQLDCLGG---------------------DYGFDASLVEYLSSVT---------SGFERHDLTCLVRLSVK  163 (478)
Q Consensus       115 -~~r~~il~~~~~~~~~---------------------~~~~~~~~i~~la~~t---------~G~s~~di~~l~~~a~~  163 (478)
                       +++.+|++........                     ....+.+.+++++...         .|.|.+....+++.|..
T Consensus       185 ~ee~~~IL~~~~~~~~~~~~~~~~~~~e~l~~~~~~~~~v~v~d~v~e~i~~l~~~lr~~r~~~~iS~R~~~~llr~A~A  264 (500)
T 3nbx_X          185 KANFRSMLTSQQDENDNPVPDALQVTDEEYERWQKEIGEITLPDHVFELIFMLRQQLDKLPDAPYVSDRRWKKAIRLLQA  264 (500)
T ss_dssp             HHHHHHHHTCCCCTTSCCSCTTTSBCHHHHHHHHHHHTTCBCCHHHHHHHHHHHHHHHHCSSSCCCCHHHHHHHHHHHHH
T ss_pred             hhhHHHHHhcccccCCCCCCccceecHHHHHHHHhcCCcccCchHHHHHHHHHHHHhhcCCCCCccchhHHHHHHHHHHH
Confidence             7889999875431100                     1223334445555543         47888888888888777


Q ss_pred             HHHHhhcCCCCCCCHHHHH
Q psy450          164 NKMLKQGINKRDLQKEDFQ  182 (478)
Q Consensus       164 ~a~~~~~~~~~~it~~d~~  182 (478)
                      .+..+   +...++++|+.
T Consensus       265 ~A~l~---gr~~Vt~eDv~  280 (500)
T 3nbx_X          265 SAFFS---GRSAVAPVDLI  280 (500)
T ss_dssp             HHHHT---TCSBCCGGGGG
T ss_pred             HHhhc---CCccccchHHH
Confidence            76654   55667888776

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.73  E-value=0.00011  Score=70.68  Aligned_cols=123  Identities=11%  Similarity=0.229  Sum_probs=82.2

Q ss_pred             hhhcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe---e---------------------
Q psy450           40 LKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---I---------------------   95 (478)
Q Consensus        40 a~~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---l---------------------   95 (478)
                      .+....+||||||+|.+.. ...+.++..|+.......  .....+-.+ +++|+   .                     
T Consensus       115 ~~~~~~~vl~lDEi~~l~~-~~~~~Ll~~le~~~~~~~--~~~~~~~~~-~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~  190 (311)
T 4fcw_A          115 VRRRPYSVILFDAIEKAHP-DVFNILLQMLDDGRLTDS--HGRTVDFRN-TVIIMTSNLGSPLILEGLQKGWPYERIRDE  190 (311)
T ss_dssp             HHHCSSEEEEEETGGGSCH-HHHHHHHHHHHHSEEECT--TSCEEECTT-EEEEEEESTTHHHHHTTTTSCCCSSTHHHH
T ss_pred             HHhCCCeEEEEeChhhcCH-HHHHHHHHHHhcCEEEcC--CCCEEECCC-cEEEEecccCHHHHHhhhcccccHHHHHHH
Confidence            3444559999999998854 456777777774221100  000011122 33444   2                     


Q ss_pred             ---------CHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcC-------CCCCCChhHHHHHHHhcC--CCCHHHHHHH
Q psy450           96 ---------RKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLG-------GDYGFDASLVEYLSSVTS--GFERHDLTCL  157 (478)
Q Consensus        96 ---------d~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~-------~~~~~~~~~i~~la~~t~--G~s~~di~~l  157 (478)
                               +|++.+||+..+.++.|+.+++.+|++.++....       .....+.+.++.++...-  ..+..+++++
T Consensus       191 ~~~~~~~~~~~~l~~R~~~~~~~~p~~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~gn~R~L~~~  270 (311)
T 4fcw_A          191 VFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQMSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRV  270 (311)
T ss_dssp             THHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHTHHHHHHHHTTTCEEEECHHHHHHHHHHSCBTTTBTTTHHHH
T ss_pred             HHHHHHHhCCHHHHhcCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHhCCcEEEeCHHHHHHHHHhCCCccCCchhHHHH
Confidence                     4578889999999999999999999999886631       123345556688888655  6788899999


Q ss_pred             HHHHHHHHH
Q psy450          158 VRLSVKNKM  166 (478)
Q Consensus       158 ~~~a~~~a~  166 (478)
                      ++.++..+.
T Consensus       271 i~~~~~~~~  279 (311)
T 4fcw_A          271 IQRELETPL  279 (311)
T ss_dssp             HHHHTHHHH
T ss_pred             HHHHHHHHH
Confidence            998888665

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.69  E-value=0.00012  Score=66.31  Aligned_cols=36  Identities=22%  Similarity=0.191  Sum_probs=29.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPE  269 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~  269 (478)
                      ..-++|+||||+|||+++..++...+.++++++...
T Consensus        20 G~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~~~   55 (220)
T 2cvh_A           20 GVLTQVYGPYASGKTTLALQTGLLSGKKVAYVDTEG   55 (220)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHCSEEEEEESSC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHcCCcEEEEECCC
Confidence            445889999999999999999886677888887543

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=97.65  E-value=0.00013  Score=67.36  Aligned_cols=74  Identities=16%  Similarity=0.148  Sum_probs=47.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH--h-------CCcEEEEechhh------hh--hhhc---------------chHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE--C-------RMNFLAVKGPEL------LN--KYIG---------------QSEEN  281 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~--~-------~~~~~~v~~~~l------~~--~~~g---------------~~~~~  281 (478)
                      ..-++|+||||+|||++++.++..  .       +...++++..+.      ..  ...+               .+...
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~  103 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFNTDH  103 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCSHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHHHHHHHcCCCHHHHhhCeEEEecCCHHH
Confidence            445889999999999999999984  2       456777775431      00  0011               01111


Q ss_pred             ----HHHHHHHhHhCCCeEEEEcCCccccC
Q psy450          282 ----IRNVFLKARSAAPCVVFFDELDSLAP  307 (478)
Q Consensus       282 ----~~~~~~~a~~~~p~il~iDeid~l~~  307 (478)
                          +..+........|.+|+||++..+..
T Consensus       104 ~~~~~~~~~~~~~~~~~~lliiD~~~~~~~  133 (243)
T 1n0w_A          104 QTQLLYQASAMMVESRYALLIVDSATALYR  133 (243)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEEETSSGGGC
T ss_pred             HHHHHHHHHHHHhcCCceEEEEeCchHHHH
Confidence                22233334456789999999998864

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=97.63  E-value=0.00062  Score=67.00  Aligned_cols=130  Identities=13%  Similarity=0.199  Sum_probs=89.2

Q ss_pred             hhhhhHHHHhhhh----cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-------eCHh
Q psy450           30 HHLNDIVKINLKK----YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-------IRKQ   98 (478)
Q Consensus        30 ~~~~~if~~~a~~----~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-------ld~a   98 (478)
                      ..++.+++ .+..    ..+.|+||||+|.+... ..+.++..++.              ....+++|.       ++++
T Consensus       102 ~~~~~l~~-~~~~~~~~~~~~vliiDe~~~l~~~-~~~~Ll~~le~--------------~~~~~~~Il~~~~~~~l~~~  165 (373)
T 1jr3_A          102 EDTRDLLD-NVQYAPARGRFKVYLIDEVHMLSRH-SFNALLKTLEE--------------PPEHVKFLLATTDPQKLPVT  165 (373)
T ss_dssp             SCHHHHHH-HTTSCCSSSSSEEEEEECGGGSCHH-HHHHHHHHHHS--------------CCSSEEEEEEESCGGGSCHH
T ss_pred             HHHHHHHH-HHhhccccCCeEEEEEECcchhcHH-HHHHHHHHHhc--------------CCCceEEEEEeCChHhCcHH
Confidence            35667776 5442    34789999999998543 35666666663              222333333       7899


Q ss_pred             HHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCH
Q psy450           99 IQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQK  178 (478)
Q Consensus        99 l~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~  178 (478)
                      +.+|+ ..++++.|+.++..++++.++...+  ...+.+.++.++..+.| +..++.++++.+...       ....|+.
T Consensus       166 l~sr~-~~i~~~~l~~~~~~~~l~~~~~~~~--~~~~~~a~~~l~~~~~G-~~r~~~~~l~~~~~~-------~~~~i~~  234 (373)
T 1jr3_A          166 ILSRC-LQFHLKALDVEQIRHQLEHILNEEH--IAHEPRALQLLARAAEG-SLRDALSLTDQAIAS-------GDGQVST  234 (373)
T ss_dssp             HHTTS-EEEECCCCCHHHHHHHHHHHHHHHT--CCBCHHHHHHHHHHSSS-CHHHHHHHHHHHHHH-------TTTCBCH
T ss_pred             HHhhe-eEeeCCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHCCC-CHHHHHHHHHHHHHh-------cCCcccH
Confidence            99998 7899999999999999999987653  34455555889998876 566777777665432       1245787


Q ss_pred             HHHHHHHH
Q psy450          179 EDFQQIYD  186 (478)
Q Consensus       179 ~d~~~a~~  186 (478)
                      +++..++.
T Consensus       235 ~~v~~~~~  242 (373)
T 1jr3_A          235 QAVSAMLG  242 (373)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHhC
Confidence            77765543

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.63  E-value=0.00017  Score=74.73  Aligned_cols=130  Identities=12%  Similarity=0.024  Sum_probs=82.5

Q ss_pred             hhhHHHHhh-----hhcCCCeEEEecccccccch--hhHhhhccccccccccccchhhhccCCCcEEEEe--e-C---Hh
Q psy450           32 LNDIVKINL-----KKYNLDIFKYDEVNYLCNVK--YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL--I-R---KQ   98 (478)
Q Consensus        32 ~~~if~~~a-----~~~~p~ilfiDe~d~i~~~r--~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via--l-d---~a   98 (478)
                      ++.+|. .+     ...+++||||||+|.+....  .++.++..++              .....+++++  . +   +.
T Consensus       132 ~~~~~~-~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~--------------~~~~~iIli~~~~~~~~l~~  196 (516)
T 1sxj_A          132 VVGYFK-HNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--------------KTSTPLILICNERNLPKMRP  196 (516)
T ss_dssp             STTTTT-C----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH--------------HCSSCEEEEESCTTSSTTGG
T ss_pred             HHHHHh-hhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHH--------------hcCCCEEEEEcCCCCccchh
Confidence            455665 44     34578999999999998643  3445554444              2344577777  1 1   22


Q ss_pred             HHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCH
Q psy450           99 IQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQK  178 (478)
Q Consensus        99 l~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~  178 (478)
                      + +|+...+.|+.|+.+++.++|...+...+..+  +.+.++.+++.+.|    |++.+++.....+.     ....++.
T Consensus       197 l-~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i--~~~~l~~la~~s~G----diR~~i~~L~~~~~-----~~~~It~  264 (516)
T 1sxj_A          197 F-DRVCLDIQFRRPDANSIKSRLMTIAIREKFKL--DPNVIDRLIQTTRG----DIRQVINLLSTIST-----TTKTINH  264 (516)
T ss_dssp             G-TTTSEEEECCCCCHHHHHHHHHHHHHHHTCCC--CTTHHHHHHHHTTT----CHHHHHHHHTHHHH-----HSSCCCT
T ss_pred             h-HhceEEEEeCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCC----cHHHHHHHHHHHHh-----cCCCCch
Confidence            3 34557899999999999999998886653333  33445899988754    55554443322222     2456788


Q ss_pred             HHHHHHHHHh
Q psy450          179 EDFQQIYDDL  188 (478)
Q Consensus       179 ~d~~~a~~~~  188 (478)
                      +++..++...
T Consensus       265 ~~v~~~~~~~  274 (516)
T 1sxj_A          265 ENINEISKAW  274 (516)
T ss_dssp             THHHHHHHHH
T ss_pred             HHHHHHHHhh
Confidence            8877766543

>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=97.59  E-value=0.00022  Score=72.76  Aligned_cols=125  Identities=15%  Similarity=0.269  Sum_probs=66.1

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CC-cEEEEechhhhhh---
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RM-NFLAVKGPELLNK---  273 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~-~~~~v~~~~l~~~---  273 (478)
                      +.+.+++++.  +.+++.+...+......    ...+++.|+||||||+++.+++..+   +. .++.+....-...   
T Consensus        18 ~~p~~~~~Ln--~~Q~~av~~~~~~i~~~----~~~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~a~T~~Aa~~l~   91 (459)
T 3upu_A           18 GSHMTFDDLT--EGQKNAFNIVMKAIKEK----KHHVTINGPAGTGATTLTKFIIEALISTGETGIILAAPTHAAKKILS   91 (459)
T ss_dssp             ---CCSSCCC--HHHHHHHHHHHHHHHSS----SCEEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEEESSHHHHHHHH
T ss_pred             cCCCccccCC--HHHHHHHHHHHHHHhcC----CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEecCcHHHHHHHH
Confidence            3445566553  34555555444443322    2369999999999999999998876   33 4555544322111   


Q ss_pred             -hhcchHHHHHHHHHHh----------------HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCC
Q psy450          274 -YIGQSEENIRNVFLKA----------------RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTS  336 (478)
Q Consensus       274 -~~g~~~~~~~~~~~~a----------------~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  336 (478)
                       ..+.....++.++...                ......+|++||+..+.             ...+..++..+.   ..
T Consensus        92 ~~~~~~~~T~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiDE~~~~~-------------~~~~~~l~~~~~---~~  155 (459)
T 3upu_A           92 KLSGKEASTIHSILKINPVTYEENVLFEQKEVPDLAKCRVLICDEVSMYD-------------RKLFKILLSTIP---PW  155 (459)
T ss_dssp             HHHSSCEEEHHHHHTEEEEECSSCEEEEECSCCCCSSCSEEEESCGGGCC-------------HHHHHHHHHHSC---TT
T ss_pred             hhhccchhhHHHHhccCcccccccchhcccccccccCCCEEEEECchhCC-------------HHHHHHHHHhcc---CC
Confidence             1111111222333210                01134699999998765             234555555553   33


Q ss_pred             CCeEEEEEcCC
Q psy450          337 QDVFILGATNR  347 (478)
Q Consensus       337 ~~v~vI~ttn~  347 (478)
                      .++++++-.+.
T Consensus       156 ~~~~~vGD~~Q  166 (459)
T 3upu_A          156 CTIIGIGDNKQ  166 (459)
T ss_dssp             CEEEEEECTTS
T ss_pred             CEEEEECCHHH
Confidence            45666665544

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=97.56  E-value=0.0002  Score=70.12  Aligned_cols=74  Identities=23%  Similarity=0.320  Sum_probs=47.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhh----hhhhc-----------chHHHHHHHHH-HhHhCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELL----NKYIG-----------QSEENIRNVFL-KARSAAP  294 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~----~~~~g-----------~~~~~~~~~~~-~a~~~~p  294 (478)
                      ..-++++||||+|||+++..++...   +.++++++...-.    ....|           .+...+..+.. .++...|
T Consensus        61 G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~~~~~  140 (349)
T 2zr9_A           61 GRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVRSGAL  140 (349)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHhcCCC
Confidence            4558999999999999999998654   5677777753311    11111           11122222222 2335678


Q ss_pred             eEEEEcCCccccC
Q psy450          295 CVVFFDELDSLAP  307 (478)
Q Consensus       295 ~il~iDeid~l~~  307 (478)
                      .+|+||++..+.+
T Consensus       141 ~lIVIDsl~~l~~  153 (349)
T 2zr9_A          141 DIIVIDSVAALVP  153 (349)
T ss_dssp             SEEEEECGGGCCC
T ss_pred             CEEEEcChHhhcc
Confidence            9999999999874

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=97.55  E-value=0.0001  Score=71.60  Aligned_cols=73  Identities=12%  Similarity=0.190  Sum_probs=47.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---------CCcEEEEechhh---------hhhhhcc----------------hH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---------RMNFLAVKGPEL---------LNKYIGQ----------------SE  279 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---------~~~~~~v~~~~l---------~~~~~g~----------------~~  279 (478)
                      ..-++++||||+|||+++..++...         +.++++++...-         ... .|.                .+
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~~~~-~g~~~~~~~~~l~~~~~~~~~  185 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMAKA-LGLDIDNVMNNIYYIRAINTD  185 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHHH-TTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHH-hCCCHHHHhccEEEEeCCCHH
Confidence            4568999999999999999998765         457788876431         110 110                11


Q ss_pred             ---HHHHHHHHHhHh-CCCeEEEEcCCccccC
Q psy450          280 ---ENIRNVFLKARS-AAPCVVFFDELDSLAP  307 (478)
Q Consensus       280 ---~~~~~~~~~a~~-~~p~il~iDeid~l~~  307 (478)
                         ..+..+...... ..+.+|+||.+..+..
T Consensus       186 ~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l~~  217 (324)
T 2z43_A          186 HQIAIVDDLQELVSKDPSIKLIVVDSVTSHFR  217 (324)
T ss_dssp             HHHHHHHHHHHHHHHCTTEEEEEETTTTHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCEEEEeCcHHHhh
Confidence               112233333344 6789999999999863

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.54  E-value=0.0007  Score=66.06  Aligned_cols=124  Identities=9%  Similarity=0.078  Sum_probs=82.5

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-----eCHhHHhccccEEEeCCCCHHHHH
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-----IRKQIQKLFLKTINVLPLTEPERR  118 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-----ld~al~rRf~~~i~~~~P~~~~r~  118 (478)
                      .+.||||||+|.+.... .+.++..|+..            .....+++++     +++++++|+. .+.|+.|+.++..
T Consensus       133 ~~~vliiDE~~~l~~~~-~~~Ll~~le~~------------~~~~~~il~~~~~~~l~~~l~sR~~-~i~~~~~~~~~~~  198 (353)
T 1sxj_D          133 PYKIIILDEADSMTADA-QSALRRTMETY------------SGVTRFCLICNYVTRIIDPLASQCS-KFRFKALDASNAI  198 (353)
T ss_dssp             SCEEEEETTGGGSCHHH-HHHHHHHHHHT------------TTTEEEEEEESCGGGSCHHHHHHSE-EEECCCCCHHHHH
T ss_pred             CceEEEEECCCccCHHH-HHHHHHHHHhc------------CCCceEEEEeCchhhCcchhhccCc-eEEeCCCCHHHHH
Confidence            45699999999987543 45566666632            1222344444     8999999996 8999999999999


Q ss_pred             HHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHH
Q psy450          119 LLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYD  186 (478)
Q Consensus       119 ~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~  186 (478)
                      .+++..+...  ....+.+.++.++..+.|. ...+.++++.++..+-..  .....|+.+|+..+..
T Consensus       199 ~~l~~~~~~~--~~~i~~~~l~~l~~~~~G~-~r~~~~~l~~~~~~~~~~--~~~~~It~~~v~~~~~  261 (353)
T 1sxj_D          199 DRLRFISEQE--NVKCDDGVLERILDISAGD-LRRGITLLQSASKGAQYL--GDGKNITSTQVEELAG  261 (353)
T ss_dssp             HHHHHHHHTT--TCCCCHHHHHHHHHHTSSC-HHHHHHHHHHTHHHHHHH--CSCCCCCHHHHHHHHT
T ss_pred             HHHHHHHHHh--CCCCCHHHHHHHHHHcCCC-HHHHHHHHHHHHHhcCCC--ccCccccHHHHHHHhC
Confidence            9999988665  3344556669999988864 344444444444332211  1112689888876655

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.54  E-value=0.00035  Score=65.18  Aligned_cols=37  Identities=30%  Similarity=0.462  Sum_probs=32.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      +..++|.|+||+||||+++.++..++..++.++...+
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~~l~~~~~~~~~D~~   68 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSF   68 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHHHTTTCCEEECGGGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCCcEEEecHHH
Confidence            6679999999999999999999999876777777655

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.53  E-value=0.00035  Score=66.52  Aligned_cols=37  Identities=30%  Similarity=0.522  Sum_probs=30.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      +..++|.||||+||||+++.++..++..++.+++..+
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~D~~   69 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTF   69 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEechHh
Confidence            6678999999999999999999998655677776444

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=97.52  E-value=0.00015  Score=71.16  Aligned_cols=74  Identities=22%  Similarity=0.350  Sum_probs=48.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechh----hhhhhhc-----------chHHHHHHHHHHh-HhCCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPE----LLNKYIG-----------QSEENIRNVFLKA-RSAAP  294 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~----l~~~~~g-----------~~~~~~~~~~~~a-~~~~p  294 (478)
                      ...++++|+||+|||++|..++...   +.++++++...    ......|           .+...+..++... +...+
T Consensus        63 G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~~~~~  142 (356)
T 1u94_A           63 GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAV  142 (356)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHhccCC
Confidence            4568999999999999999998654   66788887632    1111111           1222333333332 34678


Q ss_pred             eEEEEcCCccccC
Q psy450          295 CVVFFDELDSLAP  307 (478)
Q Consensus       295 ~il~iDeid~l~~  307 (478)
                      .+|+||.+..+.+
T Consensus       143 ~lVVIDsl~~l~~  155 (356)
T 1u94_A          143 DVIVVDSVAALTP  155 (356)
T ss_dssp             SEEEEECGGGCCC
T ss_pred             CEEEEcCHHHhcc
Confidence            8999999999875

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.52  E-value=0.00017  Score=84.42  Aligned_cols=113  Identities=19%  Similarity=0.332  Sum_probs=71.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh----hc--------chHHHHHHHHHHhHh----CCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY----IG--------QSEENIRNVFLKARS----AAP  294 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~----~g--------~~~~~~~~~~~~a~~----~~p  294 (478)
                      +..++|+|+||+|||++|..+|..+   +.++++++..+...+.    .|        ..+..+.+++..++.    ..|
T Consensus       732 G~lilIaG~PG~GKTtLalqlA~~~a~~g~~VlyiS~Ees~~ql~A~rlG~~~~~l~i~~~~~i~~i~~~~r~l~~~~~~  811 (2050)
T 3cmu_A          732 GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAV  811 (2050)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHTCC
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECCCcHHHHHHHHcCCCccceEEecCCCHHHHHHHHHHHhhccCC
Confidence            5568999999999999999998876   4568888875433322    22        111223444444433    678


Q ss_pred             eEEEEcCCccccC-CC--CC-CCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcC
Q psy450          295 CVVFFDELDSLAP-RR--GQ-EDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATN  346 (478)
Q Consensus       295 ~il~iDeid~l~~-~~--~~-~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn  346 (478)
                      ++|+||.++.+.. ..  +. ++.+.+...+.+.+++..+..+....++.||++..
T Consensus       812 ~LVIIDsLq~i~~~~~~~~~~Gs~~q~La~Reis~ilr~Lk~lAke~~v~VI~l~Q  867 (2050)
T 3cmu_A          812 DVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQ  867 (2050)
T ss_dssp             SEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEEEEEC
T ss_pred             CEEEEcchhhhcccccccCCCCchhhHHHHHHHHHHHHHHHHHHHHhCCEEEEecc
Confidence            9999999999985 21  11 11122333445666666666655666777777654

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=97.50  E-value=0.00019  Score=69.41  Aligned_cols=119  Identities=11%  Similarity=0.007  Sum_probs=69.9

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-----eCHhHHhccccEEEeCCCCHHHHH
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-----IRKQIQKLFLKTINVLPLTEPERR  118 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-----ld~al~rRf~~~i~~~~P~~~~r~  118 (478)
                      .+.||||||+|.+.+....+.++..++..            .....+++.+     +++++.+|| ..++|+.|+.++|.
T Consensus       105 ~~~vliiDEi~~l~~~~~~~~L~~~le~~------------~~~~~iI~~~n~~~~l~~~l~sR~-~~i~~~~~~~~e~~  171 (324)
T 3u61_B          105 RQKVIVIDEFDRSGLAESQRHLRSFMEAY------------SSNCSIIITANNIDGIIKPLQSRC-RVITFGQPTDEDKI  171 (324)
T ss_dssp             CEEEEEEESCCCGGGHHHHHHHHHHHHHH------------GGGCEEEEEESSGGGSCTTHHHHS-EEEECCCCCHHHHH
T ss_pred             CCeEEEEECCcccCcHHHHHHHHHHHHhC------------CCCcEEEEEeCCccccCHHHHhhC-cEEEeCCCCHHHHH
Confidence            67999999999997455566677666632            1122233333     899999999 47999999999988


Q ss_pred             HHHHHHHhhcC-----CCCCCCh-hHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Q psy450          119 LLIQYQLDCLG-----GDYGFDA-SLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIY  185 (478)
Q Consensus       119 ~il~~~~~~~~-----~~~~~~~-~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~  185 (478)
                      +|++.+.....     .....+. +.++.++..+.|-.. ++.+.++.++         ....|+.+++..+.
T Consensus       172 ~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R-~a~~~L~~~~---------~~~~i~~~~v~~~~  234 (324)
T 3u61_B          172 EMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFR-KTIGELDSYS---------SKGVLDAGILSLVT  234 (324)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTT-HHHHHHHHHG---------GGTCBCC-------
T ss_pred             HHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHH-HHHHHHHHHh---------ccCCCCHHHHHHHh
Confidence            77666553320     0223333 555888888665432 2333333332         12346666665443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.49  E-value=8.3e-05  Score=65.44  Aligned_cols=73  Identities=12%  Similarity=0.119  Sum_probs=48.3

Q ss_pred             hhhhHHHHhh-hhcCCCeEEEecccccccch-------hhHhhhccccccccccccchhhhccCCCcEEEEe--------
Q psy450           31 HLNDIVKINL-KKYNLDIFKYDEVNYLCNVK-------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL--------   94 (478)
Q Consensus        31 ~~~~if~~~a-~~~~p~ilfiDe~d~i~~~r-------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via--------   94 (478)
                      .++.+|. .+ +...|+||||||+|.+.+.+       ..+.+...++                .+.+.+|+        
T Consensus       102 ~~~~~~~-~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~----------------~~~~~~i~~~~~~~~~  164 (195)
T 1jbk_A          102 RLKGVLN-DLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA----------------RGELHCVGATTLDEYR  164 (195)
T ss_dssp             HHHHHHH-HHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH----------------TTSCCEEEEECHHHHH
T ss_pred             HHHHHHH-HHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhc----------------cCCeEEEEeCCHHHHH
Confidence            5666776 44 34568999999999997543       1111111111                22333333        


Q ss_pred             ----eCHhHHhccccEEEeCCCCHHHHHHHH
Q psy450           95 ----IRKQIQKLFLKTINVLPLTEPERRLLI  121 (478)
Q Consensus        95 ----ld~al~rRf~~~i~~~~P~~~~r~~il  121 (478)
                          +|+++.+||+ .++++.|+.++|.+||
T Consensus       165 ~~~~~~~~l~~r~~-~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          165 QYIEKDAALERRFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHTTTCHHHHTTEE-EEECCCCCHHHHHTTC
T ss_pred             HHHhcCHHHHHHhc-eeecCCCCHHHHHHHh
Confidence                5899999998 6999999999998876

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=97.49  E-value=0.0012  Score=63.16  Aligned_cols=117  Identities=12%  Similarity=0.056  Sum_probs=77.2

Q ss_pred             cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-------eCHhHHhccccEEEeCCCCHH
Q psy450           43 YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-------IRKQIQKLFLKTINVLPLTEP  115 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-------ld~al~rRf~~~i~~~~P~~~  115 (478)
                      ..+.|+||||+|.+... ..+.++..++.              ....+.+|.       +++++.+|+. .+.|+.|+.+
T Consensus       101 ~~~~vliiDe~~~l~~~-~~~~L~~~le~--------------~~~~~~~i~~~~~~~~l~~~l~sr~~-~i~~~~~~~~  164 (319)
T 2chq_A          101 APFKIIFLDEADALTAD-AQAALRRTMEM--------------YSKSCRFILSCNYVSRIIEPIQSRCA-VFRFKPVPKE  164 (319)
T ss_dssp             CCCEEEEEETGGGSCHH-HHHTTGGGTSS--------------SSSSEEEEEEESCGGGSCHHHHTTCE-EEECCCCCHH
T ss_pred             CCceEEEEeCCCcCCHH-HHHHHHHHHHh--------------cCCCCeEEEEeCChhhcchHHHhhCe-EEEecCCCHH
Confidence            45899999999998653 34556666663              122233333       8999999995 8999999999


Q ss_pred             HHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHH
Q psy450          116 ERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYD  186 (478)
Q Consensus       116 ~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~  186 (478)
                      ++.+++..++...  ....+.+.++.++..+.| +...+.++++.++   .     ....++.+++.....
T Consensus       165 ~~~~~l~~~~~~~--~~~i~~~~l~~l~~~~~G-~~r~~~~~l~~~~---~-----~~~~i~~~~v~~~~~  224 (319)
T 2chq_A          165 AMKKRLLEICEKE--GVKITEDGLEALIYISGG-DFRKAINALQGAA---A-----IGEVVDADTIYQITA  224 (319)
T ss_dssp             HHHHHHHHHHHTT--CCCBCHHHHHHHHHTTTT-CHHHHHHHHHHHH---H-----SSSCBCHHHHHHHTT
T ss_pred             HHHHHHHHHHHHc--CCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHH---H-----cCCCCCHHHHHHHHC
Confidence            9999999998765  334455555888876654 2333333333332   1     134688877765543

>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=97.47  E-value=0.00048  Score=72.08  Aligned_cols=111  Identities=20%  Similarity=0.273  Sum_probs=62.6

Q ss_pred             cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh----hcchHHHHHH
Q psy450          212 LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY----IGQSEENIRN  284 (478)
Q Consensus       212 ~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~----~g~~~~~~~~  284 (478)
                      .+.+++.+...+.         ...++++||||||||+++.+++..+   +.++..+..+.-....    .+.....+..
T Consensus       191 ~~~Q~~Av~~~~~---------~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~ApT~~Aa~~L~e~~~~~a~Tih~  261 (574)
T 3e1s_A          191 SEEQASVLDQLAG---------HRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGKAARRLGEVTGRTASTVHR  261 (574)
T ss_dssp             CHHHHHHHHHHTT---------CSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHHHHHHHHHHHTSCEEEHHH
T ss_pred             CHHHHHHHHHHHh---------CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecCcHHHHHHhHhhhcccHHHHHH
Confidence            4556655554431         3468999999999999999998755   6666655443221111    1111112222


Q ss_pred             HHHHh---------HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCC
Q psy450          285 VFLKA---------RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNR  347 (478)
Q Consensus       285 ~~~~a---------~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~  347 (478)
                      ++...         ......+|+|||+..+.             ...+..++..+.   ...++++++-.+.
T Consensus       262 ll~~~~~~~~~~~~~~~~~dvlIIDEasml~-------------~~~~~~Ll~~~~---~~~~lilvGD~~Q  317 (574)
T 3e1s_A          262 LLGYGPQGFRHNHLEPAPYDLLIVDEVSMMG-------------DALMLSLLAAVP---PGARVLLVGDTDQ  317 (574)
T ss_dssp             HTTEETTEESCSSSSCCSCSEEEECCGGGCC-------------HHHHHHHHTTSC---TTCEEEEEECTTS
T ss_pred             HHcCCcchhhhhhcccccCCEEEEcCccCCC-------------HHHHHHHHHhCc---CCCEEEEEecccc
Confidence            22110         11134799999998775             234555554433   3445667765554

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.47  E-value=8.9e-05  Score=65.46  Aligned_cols=32  Identities=22%  Similarity=0.298  Sum_probs=28.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      +..|+|+|+|||||||+++.+++.++.+++..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~   36 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDS   36 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            45699999999999999999999999988654

>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=97.47  E-value=0.002  Score=64.69  Aligned_cols=72  Identities=15%  Similarity=0.058  Sum_probs=49.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhh----------h----------hhcchHHHHHHHHHHhH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLN----------K----------YIGQSEENIRNVFLKAR  290 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~----------~----------~~g~~~~~~~~~~~~a~  290 (478)
                      |.-+++.|++|+||||++..+|..+   |..+..+++..+..          .          ........+...+..+.
T Consensus       100 p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a~  179 (443)
T 3dm5_A          100 PTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYFK  179 (443)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHHH
Confidence            5678999999999999999998766   66676666532210          0          01223444566777777


Q ss_pred             hCCCeEEEEcCCccc
Q psy450          291 SAAPCVVFFDELDSL  305 (478)
Q Consensus       291 ~~~p~il~iDeid~l  305 (478)
                      ...+.+++||....+
T Consensus       180 ~~~~DvVIIDTaGrl  194 (443)
T 3dm5_A          180 SKGVDIIIVDTAGRH  194 (443)
T ss_dssp             HTTCSEEEEECCCCS
T ss_pred             hCCCCEEEEECCCcc
Confidence            777789999987443

>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=97.44  E-value=0.00012  Score=66.91  Aligned_cols=25  Identities=28%  Similarity=0.409  Sum_probs=21.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ..-+.|.||+|+||||+++.++...
T Consensus        25 G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           25 QAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4458899999999999999999754

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=97.42  E-value=0.00018  Score=70.35  Aligned_cols=39  Identities=15%  Similarity=0.244  Sum_probs=29.9

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---------CCcEEEEechh
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---------RMNFLAVKGPE  269 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---------~~~~~~v~~~~  269 (478)
                      |.+ ..-++++||||+|||+++..++...         +.++++++...
T Consensus       118 Gl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A          118 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            444 4457899999999999999998862         45677877643

>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=97.41  E-value=0.00025  Score=70.67  Aligned_cols=75  Identities=16%  Similarity=0.180  Sum_probs=45.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---------CCcEEEEechhhh--------hhhhcch------------------
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---------RMNFLAVKGPELL--------NKYIGQS------------------  278 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---------~~~~~~v~~~~l~--------~~~~g~~------------------  278 (478)
                      ..-+.|+||||+|||++++.++-..         +...++++..+..        ....|..                  
T Consensus       178 Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~~~a~~~gl~~~~vleni~~~~~~~~~~  257 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADH  257 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCSHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHHHHHHHcCCChHhHhhcEEEeccCChHH
Confidence            4458899999999999999776432         2347777754310        0001110                  


Q ss_pred             -HHHHHHHHHHhHhCCCeEEEEcCCccccCC
Q psy450          279 -EENIRNVFLKARSAAPCVVFFDELDSLAPR  308 (478)
Q Consensus       279 -~~~~~~~~~~a~~~~p~il~iDeid~l~~~  308 (478)
                       ...+..+........|.+|+||++-.+...
T Consensus       258 ~~~~l~~~~~~l~~~~~~llVIDs~t~~~~~  288 (400)
T 3lda_A          258 QLRLLDAAAQMMSESRFSLIVVDSVMALYRT  288 (400)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEEETGGGGCC-
T ss_pred             HHHHHHHHHHHHHhcCCceEEecchhhhCch
Confidence             111222333334567899999999888753

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.38  E-value=0.00028  Score=64.40  Aligned_cols=72  Identities=19%  Similarity=0.149  Sum_probs=44.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechh-------hhhhhhcch-----HHHHHHHHHHhHh----CCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPE-------LLNKYIGQS-----EENIRNVFLKARS----AAP  294 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~-------l~~~~~g~~-----~~~~~~~~~~a~~----~~p  294 (478)
                      ..-++++||+|+|||+++..++..+   +..++.++...       +.+. .|..     .....+++..+..    ..+
T Consensus        12 G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~sr-lG~~~~~~~~~~~~~i~~~i~~~~~~~~~   90 (223)
T 2b8t_A           12 GWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSR-TGTSLPSVEVESAPEILNYIMSNSFNDET   90 (223)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCC-CCCSSCCEEESSTHHHHHHHHSTTSCTTC
T ss_pred             cEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHh-cCCCccccccCCHHHHHHHHHHHhhCCCC
Confidence            3447789999999999998887766   56666664321       1111 1110     0011234444443    357


Q ss_pred             eEEEEcCCcccc
Q psy450          295 CVVFFDELDSLA  306 (478)
Q Consensus       295 ~il~iDeid~l~  306 (478)
                      .+|+|||++.+.
T Consensus        91 dvViIDEaQ~l~  102 (223)
T 2b8t_A           91 KVIGIDEVQFFD  102 (223)
T ss_dssp             CEEEECSGGGSC
T ss_pred             CEEEEecCccCc
Confidence            899999998764

>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=97.36  E-value=0.00073  Score=66.89  Aligned_cols=89  Identities=7%  Similarity=0.004  Sum_probs=60.2

Q ss_pred             eCHhHHhccccEEEeCCCCHHHHHHHHHH----HHhh-------cCCCCCCChhHHHHHHHhcC--CCCHHHHHHHHHHH
Q psy450           95 IRKQIQKLFLKTINVLPLTEPERRLLIQY----QLDC-------LGGDYGFDASLVEYLSSVTS--GFERHDLTCLVRLS  161 (478)
Q Consensus        95 ld~al~rRf~~~i~~~~P~~~~r~~il~~----~~~~-------~~~~~~~~~~~i~~la~~t~--G~s~~di~~l~~~a  161 (478)
                      +.|++.+||+..+.|+.++.++..+|+..    ++..       .+..+..+.+.++.|+....  +.....+++++..+
T Consensus       256 ~~p~l~~R~~~~i~~~~l~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~le~~  335 (376)
T 1um8_A          256 LIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDF  335 (376)
T ss_dssp             CCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHH
T ss_pred             CChHHhcCCCceeeccCCCHHHHHHHHhhhHHHHHHHHHHHHhhcCceEEECHHHHHHHHHHhcccccCcHHHHHHHHHH
Confidence            35777888989999999999999999962    2211       11123345555678877643  46788999999999


Q ss_pred             HHHHHHhhc---CCCCCCCHHHHHH
Q psy450          162 VKNKMLKQG---INKRDLQKEDFQQ  183 (478)
Q Consensus       162 ~~~a~~~~~---~~~~~it~~d~~~  183 (478)
                      +..++.+..   .....|+.+++..
T Consensus       336 ~~~~~~~~~~~~~~~~~i~~~~v~~  360 (376)
T 1um8_A          336 CLDIMFDLPKLKGSEVRITKDCVLK  360 (376)
T ss_dssp             HHHHHHTGGGGTTSEEEECHHHHTT
T ss_pred             HHHHHhhccCCCCCEEEEeHHHhcC
Confidence            888765422   2234577777644

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.35  E-value=0.00014  Score=64.41  Aligned_cols=32  Identities=19%  Similarity=0.146  Sum_probs=23.5

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEe
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVK  266 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~  266 (478)
                      .-++++||+|+|||+++..++..+   +.+++.+.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~   38 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFK   38 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            347899999999999987666544   55555543

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.34  E-value=0.0014  Score=58.06  Aligned_cols=117  Identities=15%  Similarity=0.134  Sum_probs=66.7

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEech---------hhhhhhh-----------------cchHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP---------ELLNKYI-----------------GQSEENIRNV  285 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~---------~l~~~~~-----------------g~~~~~~~~~  285 (478)
                      ..+++++++|.||||+|-++|-..   |.++..+...         .+.....                 ..........
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~~~  108 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMAV  108 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHHHH
Confidence            458999999999999999997655   7777777321         2333220                 0012334444


Q ss_pred             HHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCC
Q psy450          286 FLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRL  361 (478)
Q Consensus       286 ~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf  361 (478)
                      +..++    .....+|++||+-....-.-    -      -...++..+..  ...+.-||.|+|.+   ++.|..  .-
T Consensus       109 l~~a~~~l~~~~yDlvILDEi~~al~~g~----l------~~~ev~~~l~~--Rp~~~~vIlTGr~a---p~~l~e--~A  171 (196)
T 1g5t_A          109 WQHGKRMLADPLLDMVVLDELTYMVAYDY----L------PLEEVISALNA--RPGHQTVIITGRGC---HRDILD--LA  171 (196)
T ss_dssp             HHHHHHHTTCTTCSEEEEETHHHHHHTTS----S------CHHHHHHHHHT--SCTTCEEEEECSSC---CHHHHH--HC
T ss_pred             HHHHHHHHhcCCCCEEEEeCCCccccCCC----C------CHHHHHHHHHh--CcCCCEEEEECCCC---cHHHHH--hC
Confidence            54443    35578999999965421110    0      01234444442  23456788888874   455554  44


Q ss_pred             CeEEEeC
Q psy450          362 DKSLYVG  368 (478)
Q Consensus       362 ~~~i~~~  368 (478)
                      |.+-++.
T Consensus       172 D~VTem~  178 (196)
T 1g5t_A          172 DTVSELR  178 (196)
T ss_dssp             SEEEECC
T ss_pred             cceeeec
Confidence            5444443

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.31  E-value=0.00014  Score=63.10  Aligned_cols=31  Identities=19%  Similarity=0.252  Sum_probs=27.6

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      .|+|.|+||+||||+++.+++.++.+++..+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~~~i~~d   33 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKYPIIKGS   33 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCCCEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeecCc
Confidence            4889999999999999999999998876554

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.31  E-value=0.0022  Score=61.53  Aligned_cols=119  Identities=9%  Similarity=0.039  Sum_probs=78.4

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-----eCHhHHhccccEEEeCCCCHHHHH
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-----IRKQIQKLFLKTINVLPLTEPERR  118 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-----ld~al~rRf~~~i~~~~P~~~~r~  118 (478)
                      .+.|+||||+|.+.... .+.++..++..            ..+..+++++     +++++.+|+. .+.|+.|+.++..
T Consensus       107 ~~~viiiDe~~~l~~~~-~~~L~~~le~~------------~~~~~~il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~  172 (323)
T 1sxj_B          107 KHKIVILDEADSMTAGA-QQALRRTMELY------------SNSTRFAFACNQSNKIIEPLQSQCA-ILRYSKLSDEDVL  172 (323)
T ss_dssp             CCEEEEEESGGGSCHHH-HHTTHHHHHHT------------TTTEEEEEEESCGGGSCHHHHTTSE-EEECCCCCHHHHH
T ss_pred             CceEEEEECcccCCHHH-HHHHHHHHhcc------------CCCceEEEEeCChhhchhHHHhhce-EEeecCCCHHHHH
Confidence            48899999999986543 44555555521            1122233333     8899999985 8999999999999


Q ss_pred             HHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHH
Q psy450          119 LLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDD  187 (478)
Q Consensus       119 ~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~  187 (478)
                      ++++.++...+  ...+.+.++.++..+.|-. ..+.++++.+...        ...++.+++..++..
T Consensus       173 ~~l~~~~~~~~--~~~~~~~~~~l~~~~~G~~-r~a~~~l~~~~~~--------~~~i~~~~v~~~~~~  230 (323)
T 1sxj_B          173 KRLLQIIKLED--VKYTNDGLEAIIFTAEGDM-RQAINNLQSTVAG--------HGLVNADNVFKIVDS  230 (323)
T ss_dssp             HHHHHHHHHHT--CCBCHHHHHHHHHHHTTCH-HHHHHHHHHHHHH--------HSSBCHHHHHHHHTS
T ss_pred             HHHHHHHHHcC--CCCCHHHHHHHHHHcCCCH-HHHHHHHHHHHhc--------CCCcCHHHHHHHHCC
Confidence            99999887653  3344555588988886643 3344444433321        135888888776653

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=97.31  E-value=0.0012  Score=68.12  Aligned_cols=73  Identities=14%  Similarity=0.258  Sum_probs=50.2

Q ss_pred             eEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC--CCCccccCCCCCCeEEEeCCCCC
Q psy450          295 CVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD--LLDPAILRPGRLDKSLYVGLYED  372 (478)
Q Consensus       295 ~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~--~ld~~l~~~~Rf~~~i~~~~pp~  372 (478)
                      -+|+|||++.+....      .......+..+...    ...-++.+|.+|.+|.  .++..++.  -|...|.+.. .+
T Consensus       345 ivvVIDE~~~L~~~~------~~~~~~~L~~Iar~----GRa~GIhLIlaTQRPs~d~I~~~Ira--n~~~RI~lrv-~s  411 (574)
T 2iut_A          345 IVVVVDEFADMMMIV------GKKVEELIARIAQK----ARAAGIHLILATQRPSVDVITGLIKA--NIPTRIAFQV-SS  411 (574)
T ss_dssp             EEEEESCCTTHHHHT------CHHHHHHHHHHHHH----CTTTTEEEEEEESCCCTTTSCHHHHH--TCCEEEEECC-SC
T ss_pred             EEEEEeCHHHHhhhh------hHHHHHHHHHHHHH----HhhCCeEEEEEecCcccccccHHHHh--hhccEEEEEc-CC
Confidence            589999999886421      11122333333322    2345799999999997  78888887  8899999988 67


Q ss_pred             HHHHHHHH
Q psy450          373 RISQLGVL  380 (478)
Q Consensus       373 ~~~r~~il  380 (478)
                      ..+...|+
T Consensus       412 ~~Dsr~IL  419 (574)
T 2iut_A          412 KIDSRTIL  419 (574)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            77766666

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.30  E-value=0.00018  Score=64.48  Aligned_cols=32  Identities=31%  Similarity=0.477  Sum_probs=28.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      +..++|.|||||||||+++.+++.++.+++..
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~   56 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKLNVPFIDL   56 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHTCCEEEH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            45699999999999999999999999887643

>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=97.29  E-value=0.0033  Score=62.58  Aligned_cols=131  Identities=11%  Similarity=0.152  Sum_probs=86.8

Q ss_pred             cCCCeEEEecccccccc-----hhhHhhhccccccccccccchhhhccCC--CcEEEEe----------eC---HhHHhc
Q psy450           43 YNLDIFKYDEVNYLCNV-----KYVYFKLCSFDSVNVKSNETKDQQCKQQ--HKKKLVL----------IR---KQIQKL  102 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~-----r~~~~~l~~~d~~~~~~~~~~~~~~~~~--~~v~via----------ld---~al~rR  102 (478)
                      .+|.||+|||++.+...     ..+..++..++...           ..+  .++.+|+          ++   +.+.+|
T Consensus       137 ~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~-----------~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~  205 (412)
T 1w5s_A          137 NHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIP-----------SRDGVNRIGFLLVASDVRALSYMREKIPQVESQ  205 (412)
T ss_dssp             TCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSC-----------CTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTT
T ss_pred             CCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcc-----------cCCCCceEEEEEEeccccHHHHHhhhcchhhhh
Confidence            56999999999998753     34444444444210           012  4555554          33   667778


Q ss_pred             cccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcC------CCCHHHHHHHHHHHHHHHHHhhcCCCCCC
Q psy450          103 FLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTS------GFERHDLTCLVRLSVKNKMLKQGINKRDL  176 (478)
Q Consensus       103 f~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~------G~s~~di~~l~~~a~~~a~~~~~~~~~~i  176 (478)
                      |...+.++.++.++..++++..+.........+.+.++.++..+.      |. +..+..+++.+...+..+   +...+
T Consensus       206 ~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~G~-p~~~~~l~~~a~~~a~~~---~~~~i  281 (412)
T 1w5s_A          206 IGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGS-ARRAIVALKMACEMAEAM---GRDSL  281 (412)
T ss_dssp             CSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCC-HHHHHHHHHHHHHHHHHT---TCSSC
T ss_pred             cCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhccCCCc-HHHHHHHHHHHHHHHHHc---CCCCC
Confidence            877799999999999999988775432122344555688888888      64 456777777776655432   44568


Q ss_pred             CHHHHHHHHHHh
Q psy450          177 QKEDFQQIYDDL  188 (478)
Q Consensus       177 t~~d~~~a~~~~  188 (478)
                      +.+++..++...
T Consensus       282 ~~~~v~~~~~~~  293 (412)
T 1w5s_A          282 SEDLVRKAVSEN  293 (412)
T ss_dssp             CHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHH
Confidence            888888777654

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.27  E-value=0.00021  Score=62.04  Aligned_cols=32  Identities=25%  Similarity=0.421  Sum_probs=28.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      ..+++|.|+|||||||+++.+++.++.+++..
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg~~~id~   38 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALKLEVLDT   38 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            34699999999999999999999999988653

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=97.27  E-value=0.00065  Score=71.45  Aligned_cols=142  Identities=15%  Similarity=0.122  Sum_probs=87.0

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe--------------------eCHhHHhcc
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL--------------------IRKQIQKLF  103 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via--------------------ld~al~rRf  103 (478)
                      ..+|+||||+|.+... ..+.++..|+.-...-.... ....-..++.|||                    +++|+++||
T Consensus       391 ~~gil~IDEid~l~~~-~q~~Ll~~le~~~i~i~~~g-~~~~~~~~~~vIaatNp~~G~~~~~~~~~~ni~l~~aLl~RF  468 (595)
T 3f9v_A          391 DGGIAVIDEIDKMRDE-DRVAIHEAMEQQTVSIAKAG-IVAKLNARAAVIAAGNPKFGRYISERPVSDNINLPPTILSRF  468 (595)
T ss_dssp             SSSEECCTTTTCCCSH-HHHHHHHHHHSSSEEEESSS-SEEEECCCCEEEEEECCTTCCSCTTSCSCTTTCSCSSSGGGC
T ss_pred             CCCcEEeehhhhCCHh-HhhhhHHHHhCCEEEEecCC-cEEEecCceEEEEEcCCcCCccCcccCchhccCCCHHHHhhC
Confidence            4689999999998554 45667777764211000000 0011123445555                    467999999


Q ss_pred             c-cEEEeCCCCHHHHHHHHHHHHhhcCC-----CC------------------CCChhHHHHHHHh--------------
Q psy450          104 L-KTINVLPLTEPERRLLIQYQLDCLGG-----DY------------------GFDASLVEYLSSV--------------  145 (478)
Q Consensus       104 ~-~~i~~~~P~~~~r~~il~~~~~~~~~-----~~------------------~~~~~~i~~la~~--------------  145 (478)
                      | ..+..+.|+.+ ...|.+..+.....     .+                  ..+.+..+.+...              
T Consensus       469 Dl~~~~~~~~~~e-~~~i~~~il~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~l~~~y~~lR~~~~~~~~~  547 (595)
T 3f9v_A          469 DLIFILKDQPGEQ-DRELANYILDVHSGKSTKNIIDIDTLRKYIAYARKYVTPKITSEAKNLITDFFVEMRKKSSETPDS  547 (595)
T ss_dssp             SCCEEECCTTHHH-HHHHHHHHHTTTCCCSSSSTTCCTTTHHHHHHHHHHHCCCCCCCTHHHHHHHHTTSSCSCCBCSSS
T ss_pred             eEEEEeCCCCCHH-HHHHHHHHHHHhhccccccCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHhhccCCCc
Confidence            8 56677788888 88888877754210     00                  0011111333332              


Q ss_pred             cCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhh
Q psy450          146 TSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSR  191 (478)
Q Consensus       146 t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~~~  191 (478)
                      +.+.|...+..+++.|...|..+   ....++.+|+..|+.-+..+
T Consensus       548 ~~~~s~R~l~~lirla~a~A~l~---~~~~V~~~dv~~Ai~l~~~s  590 (595)
T 3f9v_A          548 PILITPRQLEALIRISEAYAKMA---LKAEVTREDAERAINIMRLF  590 (595)
T ss_dssp             CBCSSTTTTTHHHHHHHHHHHTT---SSCCSSHHHHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHHHHHHh---CcCCCCHHHHHHHHHHHHHH
Confidence            34778888888888887777544   56779999999998877654

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.25  E-value=0.00021  Score=62.16  Aligned_cols=29  Identities=34%  Similarity=0.699  Sum_probs=25.7

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      ..+.|+||+||||||+++.++..++.+++
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~~~~i   33 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFY   33 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            45899999999999999999999987554

>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=97.25  E-value=0.00023  Score=63.08  Aligned_cols=31  Identities=35%  Similarity=0.584  Sum_probs=27.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +..|+|.|+||+||||+++.+++.++.+++.
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~   35 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGLRLPLLS   35 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCeEec
Confidence            5568999999999999999999999887655

>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=97.25  E-value=0.00022  Score=62.67  Aligned_cols=31  Identities=32%  Similarity=0.679  Sum_probs=27.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +..|+|+|+||+||||+++.+++.++.+++.
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~~~~~~   41 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSGLKYIN   41 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhCCeEEE
Confidence            4569999999999999999999999887754

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.25  E-value=0.0002  Score=62.57  Aligned_cols=29  Identities=31%  Similarity=0.593  Sum_probs=26.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      .++|.|+||+||||+++.+++.++.+++.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~~~~d   34 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDLVFLD   34 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCEEc
Confidence            48999999999999999999999987654

>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=97.22  E-value=0.00052  Score=67.23  Aligned_cols=35  Identities=20%  Similarity=0.283  Sum_probs=27.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---------CCcEEEEech
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---------RMNFLAVKGP  268 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---------~~~~~~v~~~  268 (478)
                      ..-+.|+||||+|||++++.++...         +..+++++..
T Consensus       131 G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e  174 (349)
T 1pzn_A          131 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTE  174 (349)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCC
Confidence            4557899999999999999999876         2355777653

>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=97.22  E-value=0.00024  Score=62.63  Aligned_cols=29  Identities=31%  Similarity=0.558  Sum_probs=26.5

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      .|+|.|+||+||||+++.+++.+|.+++.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id   32 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALGVGLLD   32 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCEEe
Confidence            48999999999999999999999988764

>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=97.21  E-value=0.00084  Score=62.85  Aligned_cols=38  Identities=21%  Similarity=0.343  Sum_probs=31.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH---hCCcEEEEechhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE---CRMNFLAVKGPELL  271 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~---~~~~~~~v~~~~l~  271 (478)
                      +.-|+|.|+||+||||+++.++..   .|.+++.++...+.
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~D~~~   44 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIR   44 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECTHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECchHHH
Confidence            446899999999999999999998   68888767765554

>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=97.19  E-value=0.0031  Score=65.68  Aligned_cols=44  Identities=20%  Similarity=0.220  Sum_probs=35.2

Q ss_pred             cCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHH
Q psy450          210 GGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       210 ~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      +|.+..++.|.+.+....   +...+.+.++|+.|+|||++|+.+++
T Consensus       131 ~GR~~~~~~l~~~L~~~~---~~~~~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMC---DLDSFFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHT---TSSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhccc---CCCceEEEEEcCCCCCHHHHHHHHHH
Confidence            499999999888775431   11256688999999999999999997

>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=97.18  E-value=0.00035  Score=62.54  Aligned_cols=32  Identities=31%  Similarity=0.506  Sum_probs=28.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      +..|+|.|+||+||||+++.+++.++.+++..
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            55699999999999999999999999876543

>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=97.17  E-value=0.00017  Score=63.78  Aligned_cols=31  Identities=39%  Similarity=0.603  Sum_probs=26.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH-hCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE-CRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~-~~~~~~~  264 (478)
                      +..|+|+|+|||||||+++.+++. +|.+++.
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~l~g~~~id   41 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAELDGFQHLE   41 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHSTTEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCCEEee
Confidence            456999999999999999999998 6766644

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.14  E-value=0.0005  Score=59.97  Aligned_cols=20  Identities=40%  Similarity=0.571  Sum_probs=17.2

Q ss_pred             CceEEEeCCCCChHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKA  253 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~  253 (478)
                      +.-+.|.||+|+||||++++
T Consensus         9 gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHH
Confidence            34578999999999999994

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=97.13  E-value=0.00038  Score=67.44  Aligned_cols=24  Identities=29%  Similarity=0.279  Sum_probs=21.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      ..-++++||||+|||+++..++..
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            455889999999999999999875

>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=97.13  E-value=0.0016  Score=60.00  Aligned_cols=36  Identities=31%  Similarity=0.254  Sum_probs=29.1

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEech-hhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGP-ELL  271 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~-~l~  271 (478)
                      .++++||+|+|||.++..++...+.+++.+... ++.
T Consensus       110 ~~ll~~~tG~GKT~~a~~~~~~~~~~~liv~P~~~L~  146 (237)
T 2fz4_A          110 RGCIVLPTGSGKTHVAMAAINELSTPTLIVVPTLALA  146 (237)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEEESSHHHH
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHcCCCEEEEeCCHHHH
Confidence            489999999999999999998887777666543 443

>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=97.11  E-value=0.00035  Score=60.70  Aligned_cols=29  Identities=21%  Similarity=0.465  Sum_probs=26.2

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      .|+|.|+||+||||+++.+++.++.+++.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id   32 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARALGYEFVD   32 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEc
Confidence            48999999999999999999999987654

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.10  E-value=0.0003  Score=65.69  Aligned_cols=32  Identities=34%  Similarity=0.462  Sum_probs=28.7

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEec
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKG  267 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~  267 (478)
                      .+++.||||+||||+|+.+|+.++..++..+.
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~~~~i~~D~   34 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETGWPVVALDR   34 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCCEEECCS
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCCCeEEeccH
Confidence            47899999999999999999999998877664

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.09  E-value=0.00039  Score=61.58  Aligned_cols=36  Identities=25%  Similarity=0.387  Sum_probs=29.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      +..|+|.|+||+||||+++.+++.++.+++  +..++.
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~~~~i--~~d~~~   38 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYGYTHL--SAGELL   38 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEE--EHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCeEE--eHHHHH
Confidence            456899999999999999999999987654  444443

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.07  E-value=0.00036  Score=60.47  Aligned_cols=29  Identities=31%  Similarity=0.520  Sum_probs=25.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      -|+|.||||+||||+++.+ +.+|.+++.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~g~~~i~~   31 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KERGAKVIVM   31 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHTTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCcEEEH
Confidence            4789999999999999999 8888886653

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.07  E-value=0.00034  Score=61.64  Aligned_cols=30  Identities=33%  Similarity=0.568  Sum_probs=26.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      +..|+|.|+||+||||+++.+++.++.+++
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l~~~~i   33 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQELGFKKL   33 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHHTCEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCeEe
Confidence            345899999999999999999999987654

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.06  E-value=0.0014  Score=60.31  Aligned_cols=34  Identities=32%  Similarity=0.343  Sum_probs=26.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      ...++++||||+|||+++..++...   +.++++++.
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~   59 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVAL   59 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEc
Confidence            4458899999999999988886543   566777664

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.06  E-value=0.00043  Score=62.01  Aligned_cols=31  Identities=26%  Similarity=0.650  Sum_probs=27.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +..|+|.|++|+||||+++.+++.++..++.
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg~~~i~   48 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACGYPFIE   48 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHTCCEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCEEEe
Confidence            4569999999999999999999999877654

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.05  E-value=0.0017  Score=63.38  Aligned_cols=102  Identities=9%  Similarity=0.029  Sum_probs=69.2

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-----eCHhHHhccccEEEeCCCCHHHHH
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-----IRKQIQKLFLKTINVLPLTEPERR  118 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-----ld~al~rRf~~~i~~~~P~~~~r~  118 (478)
                      +|.|++|||++++ .....+.++..++..            ..+..+++++     +.+++++|+ ..+.|+.|+.++..
T Consensus       134 ~~~vlilDE~~~L-~~~~~~~L~~~le~~------------~~~~~~Il~t~~~~~l~~~l~sR~-~~~~~~~~~~~~~~  199 (354)
T 1sxj_E          134 RYKCVIINEANSL-TKDAQAALRRTMEKY------------SKNIRLIMVCDSMSPIIAPIKSQC-LLIRCPAPSDSEIS  199 (354)
T ss_dssp             CCEEEEEECTTSS-CHHHHHHHHHHHHHS------------TTTEEEEEEESCSCSSCHHHHTTS-EEEECCCCCHHHHH
T ss_pred             CCeEEEEeCcccc-CHHHHHHHHHHHHhh------------cCCCEEEEEeCCHHHHHHHHHhhc-eEEecCCcCHHHHH
Confidence            5779999999994 444456666666632            1222344444     889999999 88999999999999


Q ss_pred             HHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHH
Q psy450          119 LLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLS  161 (478)
Q Consensus       119 ~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a  161 (478)
                      ++++..+...+..+.. .+.++.++..+.| +..++..+++.+
T Consensus       200 ~~l~~~~~~~~~~~~~-~~~l~~i~~~~~G-~~r~a~~~l~~~  240 (354)
T 1sxj_E          200 TILSDVVTNERIQLET-KDILKRIAQASNG-NLRVSLLMLESM  240 (354)
T ss_dssp             HHHHHHHHHHTCEECC-SHHHHHHHHHHTT-CHHHHHHHHTHH
T ss_pred             HHHHHHHHHcCCCCCc-HHHHHHHHHHcCC-CHHHHHHHHHHH
Confidence            9999998765322221 3445888888765 334444444433

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.04  E-value=0.00034  Score=61.94  Aligned_cols=37  Identities=35%  Similarity=0.451  Sum_probs=30.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      +..+.|.||||+||||+++.++...+...+.++..++
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~~~~g~i~i~~d~~   45 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDL   45 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhccCCCeEEEcccch
Confidence            4568899999999999999999887777777776554

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.04  E-value=0.0003  Score=61.77  Aligned_cols=30  Identities=27%  Similarity=0.387  Sum_probs=23.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      +..|+|.|+||+||||+++.+++.++.+++
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i   34 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLPGSFV   34 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHSTTCEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            456899999999999999999999998876

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.03  E-value=0.00044  Score=61.36  Aligned_cols=32  Identities=19%  Similarity=0.391  Sum_probs=27.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      +..|+|.|+||+||||+++.+++.++.+++..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~   40 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYGYTHLST   40 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            45689999999999999999999999876543

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=97.03  E-value=0.0028  Score=60.94  Aligned_cols=118  Identities=11%  Similarity=0.112  Sum_probs=76.2

Q ss_pred             cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-----eCHhHHhccccEEEeCCCCHHHH
Q psy450           43 YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-----IRKQIQKLFLKTINVLPLTEPER  117 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-----ld~al~rRf~~~i~~~~P~~~~r  117 (478)
                      ..+.|+||||+|.+... ..+.++..++..            ..+..+++++     +++++.+|+. .+.|+.|+.++.
T Consensus       109 ~~~~vliiDe~~~l~~~-~~~~L~~~le~~------------~~~~~~i~~~~~~~~l~~~l~sr~~-~~~~~~l~~~~~  174 (327)
T 1iqp_A          109 ASFKIIFLDEADALTQD-AQQALRRTMEMF------------SSNVRFILSCNYSSKIIEPIQSRCA-IFRFRPLRDEDI  174 (327)
T ss_dssp             CSCEEEEEETGGGSCHH-HHHHHHHHHHHT------------TTTEEEEEEESCGGGSCHHHHHTEE-EEECCCCCHHHH
T ss_pred             CCCeEEEEeCCCcCCHH-HHHHHHHHHHhc------------CCCCeEEEEeCCccccCHHHHhhCc-EEEecCCCHHHH
Confidence            45889999999998643 345566666631            1111233333     8899999996 799999999999


Q ss_pred             HHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Q psy450          118 RLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIY  185 (478)
Q Consensus       118 ~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~  185 (478)
                      .++++..+...  ....+.+.++.++..+.| +...+.++++.+..        ....++.+++....
T Consensus       175 ~~~l~~~~~~~--~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~--------~~~~i~~~~v~~~~  231 (327)
T 1iqp_A          175 AKRLRYIAENE--GLELTEEGLQAILYIAEG-DMRRAINILQAAAA--------LDKKITDENVFMVA  231 (327)
T ss_dssp             HHHHHHHHHTT--TCEECHHHHHHHHHHHTT-CHHHHHHHHHHHHT--------TCSEECHHHHHHHT
T ss_pred             HHHHHHHHHhc--CCCCCHHHHHHHHHHCCC-CHHHHHHHHHHHHh--------cCCCCCHHHHHHHH
Confidence            99999988765  333455556888888765 33444444443321        12356766665443

>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=97.02  E-value=0.00066  Score=59.50  Aligned_cols=37  Identities=22%  Similarity=0.354  Sum_probs=31.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l  270 (478)
                      +..+.|.|++|+||||+++.++..+   |.+++.++...+
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d~~~~   44 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNI   44 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEECChHH
Confidence            4568899999999999999999988   888888875433

>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=97.01  E-value=0.00051  Score=62.47  Aligned_cols=31  Identities=32%  Similarity=0.516  Sum_probs=27.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +..|+|.|+||+||||+++.+++.++.+++.
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~   34 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFHAAHLA   34 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEe
Confidence            4568999999999999999999999976654

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.01  E-value=0.00035  Score=61.09  Aligned_cols=34  Identities=24%  Similarity=0.405  Sum_probs=25.7

Q ss_pred             ceEEEeCCCCChHHHHHHHHHH-HhCCcEEEEechhh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVAT-ECRMNFLAVKGPEL  270 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~-~~~~~~~~v~~~~l  270 (478)
                      .-|+|.|+||+||||+++.+++ .++  +..++...+
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~~~~~--~~~i~~d~~   37 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIAKNPG--FYNINRDDY   37 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTT--EEEECHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHhhcCC--cEEecHHHH
Confidence            4589999999999999999998 454  444444333

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.00  E-value=0.00052  Score=59.31  Aligned_cols=29  Identities=17%  Similarity=0.317  Sum_probs=26.2

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      .|+|.|+||+||||+++.+++.++.+++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~~~~i~   30 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLNIPFYD   30 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHTCCEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEE
Confidence            38899999999999999999999987764

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.99  E-value=0.00043  Score=61.11  Aligned_cols=25  Identities=24%  Similarity=0.405  Sum_probs=23.1

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      ..|+|.|+||+||||+++.+++.++
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4589999999999999999999887

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=96.99  E-value=0.0022  Score=65.57  Aligned_cols=75  Identities=17%  Similarity=0.313  Sum_probs=48.1

Q ss_pred             Ce-EEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC--CCCccccCCCCCCeEEEeCCC
Q psy450          294 PC-VVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD--LLDPAILRPGRLDKSLYVGLY  370 (478)
Q Consensus       294 p~-il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~--~ld~~l~~~~Rf~~~i~~~~p  370 (478)
                      |. +++|||+..+....      .......+..+...    ...-++.+|.+|.+|.  .++..++.  .|...|.+.. 
T Consensus       297 P~ivlvIDE~~~ll~~~------~~~~~~~l~~Lar~----gRa~GI~LIlaTQrp~~dvl~~~i~~--n~~~RI~lrv-  363 (512)
T 2ius_A          297 PYIVVLVDEFADLMMTV------GKKVEELIARLAQK----ARAAGIHLVLATQRPSVDVITGLIKA--NIPTRIAFTV-  363 (512)
T ss_dssp             CEEEEEEETHHHHHHHH------HHHHHHHHHHHHHH----CGGGTEEEEEEESCCCTTTSCHHHHH--HCCEEEEECC-
T ss_pred             CcEEEEEeCHHHHHhhh------hHHHHHHHHHHHHH----hhhCCcEEEEEecCCccccccHHHHh--hcCCeEEEEc-
Confidence            54 88999998776310      11112222222221    1233688889999987  57887887  8888999988 


Q ss_pred             CCHHHHHHHHH
Q psy450          371 EDRISQLGVLK  381 (478)
Q Consensus       371 p~~~~r~~il~  381 (478)
                      .+..+...|+.
T Consensus       364 ~s~~dsr~ilg  374 (512)
T 2ius_A          364 SSKIDSRTILD  374 (512)
T ss_dssp             SSHHHHHHHHS
T ss_pred             CCHHHHHHhcC
Confidence            67777766663

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.99  E-value=0.00051  Score=61.10  Aligned_cols=31  Identities=19%  Similarity=0.393  Sum_probs=26.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +.-|+|.|+||+||||+++.+++.++.+++.
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~~~~i~   42 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYGFTHLS   42 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEc
Confidence            4458999999999999999999999866544

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.99  E-value=0.00051  Score=62.16  Aligned_cols=30  Identities=23%  Similarity=0.506  Sum_probs=26.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      .|+|.||||+||||+++.+++.++.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYEIPHIST   31 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEeeH
Confidence            378999999999999999999998876544

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.99  E-value=0.00049  Score=62.34  Aligned_cols=30  Identities=23%  Similarity=0.489  Sum_probs=26.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      .|+|.||||+||||+++.+++.++.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKYGIPHIST   31 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            388999999999999999999998776554

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.98  E-value=0.00068  Score=66.46  Aligned_cols=69  Identities=17%  Similarity=0.315  Sum_probs=44.3

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEec-hhhhh--------h-hhcchHHHHHHHHHHhHhCCCeEEEEc
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKG-PELLN--------K-YIGQSEENIRNVFLKARSAAPCVVFFD  300 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~-~~l~~--------~-~~g~~~~~~~~~~~~a~~~~p~il~iD  300 (478)
                      ..+++.||+|+||||++++++..+    +..++.+.. .++..        + ..+.....+...+..+....|.+|++|
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL~~~PdvillD  203 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSALREDPDIILVG  203 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHTTSCCSEEEES
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHhhhCcCEEecC
Confidence            358899999999999999998765    234433321 11100        0 011111234457777888899999999


Q ss_pred             CCc
Q psy450          301 ELD  303 (478)
Q Consensus       301 eid  303 (478)
                      |.-
T Consensus       204 Ep~  206 (356)
T 3jvv_A          204 EMR  206 (356)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            963

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.97  E-value=0.00071  Score=58.96  Aligned_cols=30  Identities=33%  Similarity=0.521  Sum_probs=25.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      +..++|.||+|+||||+++.++..+|..++
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~g~~~i   37 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQLHAAFL   37 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhhCcEEE
Confidence            456899999999999999999998876554

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.96  E-value=0.00054  Score=60.54  Aligned_cols=31  Identities=19%  Similarity=0.367  Sum_probs=26.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +..|+|.|+|||||||+++.+++.++.+++.
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~~i~   36 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFGWVHLS   36 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEee
Confidence            4568999999999999999999999876554

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.96  E-value=0.0011  Score=61.42  Aligned_cols=32  Identities=19%  Similarity=0.334  Sum_probs=27.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      +..|+|.||||+||||+++.+++.++.+++..
T Consensus        29 ~~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~   60 (243)
T 3tlx_A           29 DGRYIFLGAPGSGKGTQSLNLKKSHCYCHLST   60 (243)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            66799999999999999999999998765543

>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=96.95  E-value=0.00061  Score=62.62  Aligned_cols=31  Identities=35%  Similarity=0.493  Sum_probs=27.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +..|+|.|+||+||||+++.+++.++.+++.
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~   46 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFCVCHLA   46 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            4569999999999999999999999976654

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.95  E-value=0.0042  Score=62.27  Aligned_cols=72  Identities=17%  Similarity=0.047  Sum_probs=46.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhh----------hhhh---------c-chHHHHHHHHHHhH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELL----------NKYI---------G-QSEENIRNVFLKAR  290 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~----------~~~~---------g-~~~~~~~~~~~~a~  290 (478)
                      +.-+++.||+|+||||++..+|..+   |..+..+++..+.          ....         + .........+..+.
T Consensus        97 ~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~~dp~~i~~~al~~a~  176 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKGVDIFV  176 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTCSCHHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccchhHHHHHHHHHHhcCCceeeccccCCHHHHHHHHHHHHH
Confidence            5678899999999999999998766   6666666543111          0000         1 12222345566666


Q ss_pred             hCCCeEEEEcCCccc
Q psy450          291 SAAPCVVFFDELDSL  305 (478)
Q Consensus       291 ~~~p~il~iDeid~l  305 (478)
                      ...+.++++|....+
T Consensus       177 ~~~~DvvIIDTaGr~  191 (433)
T 3kl4_A          177 KNKMDIIIVDTAGRH  191 (433)
T ss_dssp             TTTCSEEEEEECCCS
T ss_pred             hcCCCEEEEECCCCc
Confidence            667889999987543

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.94  E-value=0.00061  Score=61.88  Aligned_cols=37  Identities=22%  Similarity=0.447  Sum_probs=30.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      ++-|+|.||||+||+|.|+.|++.++.+  +++..+++.
T Consensus        29 ~kiI~llGpPGsGKgTqa~~L~~~~g~~--hIstGdllR   65 (217)
T 3umf_A           29 AKVIFVLGGPGSGKGTQCEKLVQKFHFN--HLSSGDLLR   65 (217)
T ss_dssp             CEEEEEECCTTCCHHHHHHHHHHHHCCE--EECHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHCCc--eEcHHHHHH
Confidence            6678899999999999999999999865  455555553

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.93  E-value=0.0006  Score=61.45  Aligned_cols=33  Identities=36%  Similarity=0.614  Sum_probs=27.6

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      |+|.||||+||+|.|+.|++.++.+.  ++..+++
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~g~~~--istGdll   35 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEKGFVH--ISTGDIL   35 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEE--EEHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeE--EcHHHHH
Confidence            78999999999999999999998765  5555554

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.93  E-value=0.00057  Score=62.51  Aligned_cols=31  Identities=23%  Similarity=0.500  Sum_probs=27.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +..|+|.|+||+||||+++.+++.++.+++.
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~   37 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHFELKHLS   37 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHSSSEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCeEEe
Confidence            4569999999999999999999999876654

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.91  E-value=0.00095  Score=59.70  Aligned_cols=37  Identities=19%  Similarity=0.248  Sum_probs=29.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l  270 (478)
                      +..+.|.||+|+||||+++.++..+   |...+.++...+
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d~d~~   64 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILDGDNV   64 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEecCchh
Confidence            5568899999999999999999988   555456665444

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.91  E-value=0.00077  Score=60.28  Aligned_cols=32  Identities=22%  Similarity=0.403  Sum_probs=27.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      +..|+|.|+|||||||+++.+++.++.+++..
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~~   46 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKDYSFVHLSA   46 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHSSCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeH
Confidence            45689999999999999999999998765543

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.88  E-value=0.00034  Score=67.94  Aligned_cols=52  Identities=23%  Similarity=0.404  Sum_probs=35.5

Q ss_pred             CcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          211 GLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       211 g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      .++...+.+...+...... |. ..+++|.|++|+|||+++++++..++.+|+.
T Consensus         3 ~~~~L~~~il~~l~~~i~~-g~-~~~i~l~G~~G~GKTTl~~~la~~l~~~f~~   54 (359)
T 2ga8_A            3 DTHKLADDVLQLLDNRIED-NY-RVCVILVGSPGSGKSTIAEELCQIINEKYHT   54 (359)
T ss_dssp             CHHHHHHHHHHHHHHTTTT-CS-CEEEEEECCTTSSHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhcc-CC-eeEEEEECCCCCcHHHHHHHHHHHhCCCeee
Confidence            4455555555444433221 21 3469999999999999999999999877643

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.87  E-value=0.0008  Score=60.20  Aligned_cols=35  Identities=31%  Similarity=0.543  Sum_probs=27.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      +..+.|.||+|+||||+++.++..+|..+  ++..++
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~~~g~~~--i~~d~~   63 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVADETGLEF--AEADAF   63 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHCCEE--EEGGGG
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCCeE--Eccccc
Confidence            45688999999999999999999997644  444443

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.85  E-value=0.00077  Score=61.20  Aligned_cols=32  Identities=28%  Similarity=0.552  Sum_probs=27.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      +..|+|.|+||+||||+++.+++.++.+++..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            34589999999999999999999999776543

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.84  E-value=0.00057  Score=62.21  Aligned_cols=31  Identities=16%  Similarity=0.405  Sum_probs=26.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +..|+|.|+||+||||+++.+++.++..++.
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~   35 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQLAHIS   35 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            4569999999999999999999999975543

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.83  E-value=0.00097  Score=58.94  Aligned_cols=30  Identities=23%  Similarity=0.180  Sum_probs=27.2

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh---CCcEEEEe
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC---RMNFLAVK  266 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~  266 (478)
                      |.|.|++|+||||+++.+++.+   |.+++..+
T Consensus         3 I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~d   35 (195)
T 2pbr_A            3 IAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYR   35 (195)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            7899999999999999999988   88887765

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.81  E-value=0.00093  Score=60.83  Aligned_cols=30  Identities=30%  Similarity=0.517  Sum_probs=26.2

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      ..+.|.||+||||||+++.++..++.+++.
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g~~~~d   35 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQWHLLD   35 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            358899999999999999999999876643

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.81  E-value=0.00078  Score=64.77  Aligned_cols=34  Identities=29%  Similarity=0.496  Sum_probs=30.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~  267 (478)
                      +..++|.||+|+|||++++.+|+.++..++.++.
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l~~~iis~Ds   38 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADALPCELISVDS   38 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEEECT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCcEEeccc
Confidence            3468999999999999999999999988888764

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.81  E-value=0.00085  Score=59.22  Aligned_cols=35  Identities=20%  Similarity=0.238  Sum_probs=27.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhC---CcEEEEechhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECR---MNFLAVKGPEL  270 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~~~~l  270 (478)
                      .|+|.|+||+||||+++.+++.++   .++..++..++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~~~~~~~   40 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINYGDF   40 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEEHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCceEEEEECChH
Confidence            488999999999999999999885   33555554443

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.78  E-value=0.00086  Score=60.67  Aligned_cols=30  Identities=20%  Similarity=0.361  Sum_probs=26.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      .|+|.|+||+||||+++.+++.++.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g~~~i~~   31 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            389999999999999999999998776554

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.78  E-value=0.0009  Score=58.43  Aligned_cols=65  Identities=14%  Similarity=0.131  Sum_probs=42.9

Q ss_pred             hhhhHHHHhhhhc-CCCeEEEecccccccch--------hhHhhhccccccccccccchhhhccCCCcEEEEe-------
Q psy450           31 HLNDIVKINLKKY-NLDIFKYDEVNYLCNVK--------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-------   94 (478)
Q Consensus        31 ~~~~if~~~a~~~-~p~ilfiDe~d~i~~~r--------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-------   94 (478)
                      .++.+|. .+... .|+||||||+|.+.+.+        ..+.+...++                ...+.+|+       
T Consensus       102 ~~~~~~~-~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~----------------~~~~~ii~~~~~~~~  164 (187)
T 2p65_A          102 RLKSILK-EVQDAEGQVVMFIDEIHTVVGAGAVAEGALDAGNILKPMLA----------------RGELRCIGATTVSEY  164 (187)
T ss_dssp             HHHHHHH-HHHHTTTSEEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHH----------------TTCSCEEEEECHHHH
T ss_pred             HHHHHHH-HHHhcCCceEEEEeCHHHhcccccccccchHHHHHHHHHHh----------------cCCeeEEEecCHHHH
Confidence            5677776 55554 78999999999997432        1222222122                23344444       


Q ss_pred             -----eCHhHHhccccEEEeCCCC
Q psy450           95 -----IRKQIQKLFLKTINVLPLT  113 (478)
Q Consensus        95 -----ld~al~rRf~~~i~~~~P~  113 (478)
                           +|++++|||+. ++++.|+
T Consensus       165 ~~~~~~~~~l~~R~~~-i~i~~p~  187 (187)
T 2p65_A          165 RQFIEKDKALERRFQQ-ILVEQPS  187 (187)
T ss_dssp             HHHTTTCHHHHHHEEE-EECCSCC
T ss_pred             HHHHhccHHHHHhcCc-ccCCCCC
Confidence                 68999999984 9999996

>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=96.77  E-value=0.0037  Score=59.00  Aligned_cols=25  Identities=28%  Similarity=0.408  Sum_probs=21.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ..-++|+||+|+|||+++..++..+
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4458899999999999999998644

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.74  E-value=0.001  Score=60.70  Aligned_cols=34  Identities=21%  Similarity=0.538  Sum_probs=27.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      .|+|.|+||+||||+++.+++.++.+++  +..++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg~~~i--~~dd~~   35 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYSLAHI--ESGGIF   35 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCEEE--EHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEE--chHHHH
Confidence            3789999999999999999999987554  443443

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.74  E-value=0.00096  Score=59.49  Aligned_cols=29  Identities=17%  Similarity=0.478  Sum_probs=25.9

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      .|.|.|++|+||||+++.+++.++..++.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~~~~~   30 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGYEIFK   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCCEEEC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCCcEEc
Confidence            37899999999999999999999987654

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.73  E-value=0.0032  Score=60.33  Aligned_cols=70  Identities=16%  Similarity=0.125  Sum_probs=45.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhh-------hh------------h-cchHHHHHHHHHHhH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLN-------KY------------I-GQSEENIRNVFLKAR  290 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~-------~~------------~-g~~~~~~~~~~~~a~  290 (478)
                      +.-+++.||+|+||||++..+|..+   +..+..+++..+..       .+            . +.........+..+.
T Consensus       104 ~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~al~~a~  183 (306)
T 1vma_A          104 PFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAVAHAL  183 (306)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEccccccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHHH
Confidence            5568899999999999999999766   55565555422110       00            0 112222234455556


Q ss_pred             hCCCeEEEEcCCc
Q psy450          291 SAAPCVVFFDELD  303 (478)
Q Consensus       291 ~~~p~il~iDeid  303 (478)
                      ...|.++++|+.-
T Consensus       184 ~~~~dvvIiDtpg  196 (306)
T 1vma_A          184 ARNKDVVIIDTAG  196 (306)
T ss_dssp             HTTCSEEEEEECC
T ss_pred             hcCCCEEEEECCC
Confidence            6788899999864

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.72  E-value=0.00083  Score=62.93  Aligned_cols=69  Identities=19%  Similarity=0.390  Sum_probs=42.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC----CcEEEEechhh--hhh---------hhcchHHHHHHHHHHhHhCCCeEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR----MNFLAVKGPEL--LNK---------YIGQSEENIRNVFLKARSAAPCVVF  298 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~----~~~~~v~~~~l--~~~---------~~g~~~~~~~~~~~~a~~~~p~il~  298 (478)
                      ...+++.||+|+||||++++++..+.    ..+.... ..+  ...         ..|.....++..+..+....|.+|+
T Consensus        25 g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g-~~i~~~~~~~~~~v~q~~~gl~~~~l~~~la~aL~~~p~ill  103 (261)
T 2eyu_A           25 MGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIE-DPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPDVIF  103 (261)
T ss_dssp             SEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEE-SSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHHHHCCSEEE
T ss_pred             CCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcC-CcceeecCCcceeeeHHHhCCCHHHHHHHHHHHHhhCCCEEE
Confidence            44588999999999999999987652    2232221 111  000         0011112345566666667899999


Q ss_pred             EcCCc
Q psy450          299 FDELD  303 (478)
Q Consensus       299 iDeid  303 (478)
                      +||.-
T Consensus       104 lDEp~  108 (261)
T 2eyu_A          104 VGEMR  108 (261)
T ss_dssp             ESCCC
T ss_pred             eCCCC
Confidence            99963

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.71  E-value=0.0012  Score=60.47  Aligned_cols=31  Identities=26%  Similarity=0.475  Sum_probs=26.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +..+.|.||||+||||+++.+++.++.+++.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg~~~~d   39 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALGARYLD   39 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            4568999999999999999999999876643

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.70  E-value=0.0016  Score=60.00  Aligned_cols=34  Identities=29%  Similarity=0.226  Sum_probs=26.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH----hCCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE----CRMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~----~~~~~~~v~~  267 (478)
                      ..-++++|+||+|||++|..++..    .+.++++++.
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~   67 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTL   67 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecc
Confidence            445889999999999999887543    3667777664

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.67  E-value=0.0012  Score=59.03  Aligned_cols=33  Identities=12%  Similarity=0.102  Sum_probs=28.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh-CCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC-RMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~-~~~~~~v~  266 (478)
                      +..|.|.|++|+||||+++.+++.+ |.+++.+.
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~~   37 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESIPANTIKYLN   37 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTSCGGGEEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHCCCceEEEe
Confidence            4568999999999999999999998 57777665

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.65  E-value=0.0012  Score=61.26  Aligned_cols=31  Identities=29%  Similarity=0.466  Sum_probs=27.5

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      ..+.|.|++|+||||+++.++..++.+++..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg~~~~d~   79 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLGYTFFDC   79 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCcEEeC
Confidence            4599999999999999999999999877653

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.65  E-value=0.0013  Score=60.82  Aligned_cols=30  Identities=27%  Similarity=0.577  Sum_probs=26.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      +..+.|.||+|+||||+++.+++.+|....
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg~~~~   56 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFGLQHL   56 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCCCE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEe
Confidence            567999999999999999999999987543

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.64  E-value=0.0012  Score=59.14  Aligned_cols=29  Identities=24%  Similarity=0.274  Sum_probs=24.9

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      .|.|.|++||||||+++.++. +|.+++..
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~g~~~i~~   31 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-LGAYVLDA   31 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-TTCEEEEH
T ss_pred             EEEEECCCCcCHHHHHHHHHH-CCCEEEEc
Confidence            488999999999999999999 88766543

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.63  E-value=0.016  Score=58.84  Aligned_cols=34  Identities=21%  Similarity=0.229  Sum_probs=27.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~  267 (478)
                      +.-+++.|+||+|||+++..++...    |.++++++.
T Consensus       203 G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~  240 (454)
T 2r6a_A          203 SDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSL  240 (454)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEES
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEEC
Confidence            4458899999999999999987654    557777764

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.63  E-value=0.0075  Score=58.04  Aligned_cols=37  Identities=27%  Similarity=0.188  Sum_probs=28.3

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      |.. ..-+++.|+||+|||+++..+|...   +.++++++.
T Consensus        64 Gl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~sl  104 (315)
T 3bh0_A           64 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSL  104 (315)
T ss_dssp             SBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEES
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEEC
Confidence            444 4458899999999999999998654   457777764

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=96.58  E-value=0.0016  Score=57.94  Aligned_cols=35  Identities=14%  Similarity=0.204  Sum_probs=28.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      .|.|+|++||||||+++.+++.+|.+++.  +..+..
T Consensus        14 iIgltG~~GSGKSTva~~L~~~lg~~vid--~D~~~~   48 (192)
T 2grj_A           14 VIGVTGKIGTGKSTVCEILKNKYGAHVVN--VDRIGH   48 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCEEEE--HHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCEEEE--CcHHHH
Confidence            37899999999999999999988877654  444443

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.58  E-value=0.0016  Score=58.27  Aligned_cols=30  Identities=27%  Similarity=0.481  Sum_probs=26.8

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      .+.|.|++|+||||+++.+++.+|.+++..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~d~   33 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYLSS   33 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceecc
Confidence            588999999999999999999999877653

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=96.57  E-value=0.0079  Score=63.37  Aligned_cols=25  Identities=32%  Similarity=0.424  Sum_probs=20.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .+.++++|+||||||+++..+...+
T Consensus       164 ~~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          164 RRISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCHHHHHHHHHHHH
Confidence            3458999999999999988776544

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.55  E-value=0.0099  Score=56.60  Aligned_cols=34  Identities=21%  Similarity=0.336  Sum_probs=27.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~  267 (478)
                      +..+++.||+|+||||++..+|..+    |..+..++.
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~  142 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITT  142 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEEC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEec
Confidence            5568899999999999999998755    556666664

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.54  E-value=0.0014  Score=58.80  Aligned_cols=32  Identities=25%  Similarity=0.266  Sum_probs=26.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      .+.|.||+|+||||+++.++. +|.+++  +...+
T Consensus         4 ~i~l~G~~GsGKST~~~~La~-lg~~~i--d~d~~   35 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD-LGVPLV--DADVV   35 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT-TTCCEE--EHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCccc--chHHH
Confidence            478999999999999999987 787765  44444

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.54  E-value=0.0052  Score=54.90  Aligned_cols=34  Identities=21%  Similarity=0.203  Sum_probs=27.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      +.-+.+.|++|+||||+++.++..+   +.++...+.
T Consensus        22 ~~~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~   58 (201)
T 1rz3_A           22 RLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHM   58 (201)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEecc
Confidence            4568899999999999999999876   556665543

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.51  E-value=0.003  Score=55.53  Aligned_cols=37  Identities=30%  Similarity=0.300  Sum_probs=28.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l  270 (478)
                      +..++|.|++|+||||+++.++..+   +.++..++...+
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~d~~   52 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLDGDWA   52 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEeeHHHH
Confidence            5568899999999999999999887   344556665433

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.49  E-value=0.0026  Score=59.11  Aligned_cols=38  Identities=11%  Similarity=0.120  Sum_probs=31.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc--------EEEEechhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN--------FLAVKGPELL  271 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~--------~~~v~~~~l~  271 (478)
                      +..|.|.|++|+||||+++.+++.++.+        +..++..++.
T Consensus        22 ~~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~~   67 (252)
T 1uj2_A           22 PFLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFY   67 (252)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGGB
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCccc
Confidence            5568999999999999999999999876        3456666554

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.48  E-value=0.0017  Score=58.24  Aligned_cols=32  Identities=16%  Similarity=0.142  Sum_probs=26.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc--EEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN--FLAV  265 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~--~~~v  265 (478)
                      +.-|+|.|+||+||||+++.+++.++..  ++..
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~   37 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIELKRDVYLT   37 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHTTTSCEEEE
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhhcCCEEEe
Confidence            4458999999999999999999998763  5443

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.44  E-value=0.024  Score=59.68  Aligned_cols=141  Identities=17%  Similarity=0.134  Sum_probs=83.4

Q ss_pred             cCCCeEEEecccccccchhhHhhhccccccccccccch----hh---hccCCCcEEEEe---------eCHhHHhccc--
Q psy450           43 YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETK----DQ---QCKQQHKKKLVL---------IRKQIQKLFL--  104 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~----~~---~~~~~~~v~via---------ld~al~rRf~--  104 (478)
                      ..+.+|||||++.+- ....+.++..|+.-........    ..   ...-...+.||+         +||++++||+  
T Consensus       200 a~~gvL~LDEi~~l~-~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~~~vI~atn~~~~~~l~~~l~~R~~v~  278 (604)
T 3k1j_A          200 AHKGVLFIDEIATLS-LKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNLDTVDKMHPALRSRIRGY  278 (604)
T ss_dssp             TTTSEEEETTGGGSC-HHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECCCEEEEEECHHHHHHSCHHHHHHHHHH
T ss_pred             cCCCEEEEechhhCC-HHHHHHHHHHHHcCcEEecccccccccccCCCCccceeEEEEEecCHHHHhhcCHHHHHHhhcc
Confidence            467899999999973 4455666666663211110000    00   000012344444         8999999996  


Q ss_pred             -cEEEeCC--C-CHHHHHHHHHHHHhhcC---CCCCCChhHHHHHHHhc---CCC------CHHHHHHHHHHHHHHHHHh
Q psy450          105 -KTINVLP--L-TEPERRLLIQYQLDCLG---GDYGFDASLVEYLSSVT---SGF------ERHDLTCLVRLSVKNKMLK  168 (478)
Q Consensus       105 -~~i~~~~--P-~~~~r~~il~~~~~~~~---~~~~~~~~~i~~la~~t---~G~------s~~di~~l~~~a~~~a~~~  168 (478)
                       ..+.++.  | ..+....+++.+.....   .....+.+.+..|.+..   .|-      +..++.++++.|...+..+
T Consensus       279 ~i~i~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ls~eAl~~Li~~~~r~~g~r~~l~~~~R~l~~llr~A~~~A~~~  358 (604)
T 3k1j_A          279 GYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLGGIVRAAGDIAVKK  358 (604)
T ss_dssp             SEEEECCSEEECCHHHHHHHHHHHHHHHHHHCSSCCBBHHHHHHHHHHHHHTTCSTTEEECCHHHHHHHHHHHHHHHHHT
T ss_pred             ceEeeccccccCCHHHHHHHHHHHHHHHhhccCcccCCHHHHHHHHHHHhhhhccccccccCHHHHHHHHHHHHHHHHhc
Confidence             4555543  2 35566777665554321   12234444446666533   553      7899999999987666433


Q ss_pred             hcCCCCCCCHHHHHHHHHH
Q psy450          169 QGINKRDLQKEDFQQIYDD  187 (478)
Q Consensus       169 ~~~~~~~it~~d~~~a~~~  187 (478)
                         ....|+.+|+..|+..
T Consensus       359 ---~~~~I~~edv~~A~~~  374 (604)
T 3k1j_A          359 ---GKKYVEREDVIEAVKM  374 (604)
T ss_dssp             ---TCSSBCHHHHHHHHHH
T ss_pred             ---CcccccHHHHHHHHHh
Confidence               5667999999998854

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.43  E-value=0.00079  Score=60.56  Aligned_cols=28  Identities=18%  Similarity=0.181  Sum_probs=24.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN  261 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~  261 (478)
                      +.-|+|.|+||+||||+++.+++.++.+
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~~   37 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKNN   37 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            5568999999999999999999987543

>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=96.43  E-value=0.0034  Score=61.80  Aligned_cols=24  Identities=25%  Similarity=0.451  Sum_probs=20.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+||||||++++|+...
T Consensus        30 e~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           30 EFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEEcCCCchHHHHHHHHHcCC
Confidence            347799999999999999999755

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.40  E-value=0.0023  Score=56.92  Aligned_cols=35  Identities=20%  Similarity=0.153  Sum_probs=28.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      +..|.|.|++||||||+++.+++. |.+++  +...+.
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~-g~~~i--d~d~~~   42 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSW-GYPVL--DLDALA   42 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT-TCCEE--EHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHC-CCEEE--cccHHH
Confidence            556899999999999999999998 76665  444443

>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=96.39  E-value=0.0023  Score=63.13  Aligned_cols=70  Identities=20%  Similarity=0.421  Sum_probs=43.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC----CcEEEEech-hhh--h--hhhcc-----hHHHHHHHHHHhHhCCCeEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR----MNFLAVKGP-ELL--N--KYIGQ-----SEENIRNVFLKARSAAPCVVFF  299 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~----~~~~~v~~~-~l~--~--~~~g~-----~~~~~~~~~~~a~~~~p~il~i  299 (478)
                      ...+++.||+|+||||++++++..+.    ..++.+..+ ++.  .  .++.+     ....+...+..+....|.+|++
T Consensus       136 g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~~~~~~~~~v~Q~~~g~~~~~~~~~l~~~L~~~pd~ill  215 (372)
T 2ewv_A          136 MGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPDVIFV  215 (372)
T ss_dssp             SEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCSHHHHHHHTTSCCSEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhhhhccCceEEEeeecCCCHHHHHHHHHHHhhhCcCEEEE
Confidence            44588999999999999999988652    333333311 100  0  00111     1122345566666678999999


Q ss_pred             cCCc
Q psy450          300 DELD  303 (478)
Q Consensus       300 Deid  303 (478)
                      ||+-
T Consensus       216 dE~~  219 (372)
T 2ewv_A          216 GEMR  219 (372)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            9973

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.39  E-value=0.0015  Score=62.98  Aligned_cols=35  Identities=23%  Similarity=0.365  Sum_probs=30.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEech
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGP  268 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~  268 (478)
                      +..|+|.||+|+|||+++..||+.++..++..+.-
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~Ds~   74 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFPLEVINSDKM   74 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSCEEEEECCSS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCCCcEEccccc
Confidence            45689999999999999999999999888776654

>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=96.37  E-value=0.002  Score=61.39  Aligned_cols=34  Identities=24%  Similarity=0.469  Sum_probs=29.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~  267 (478)
                      +.-+++.||+|+|||+++..+|+.++..++..+.
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds   43 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKILPVELISVDS   43 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEECCT
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhCCCcEEeccc
Confidence            4568899999999999999999999887777654

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.36  E-value=0.0028  Score=58.98  Aligned_cols=30  Identities=30%  Similarity=0.484  Sum_probs=26.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      ...+.|.||+|+||||+++.+++.+|..++
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~Lg~~~~   56 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAESLNWRLL   56 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHTTCEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhcCCCcC
Confidence            345889999999999999999999997654

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=96.34  E-value=0.014  Score=56.61  Aligned_cols=106  Identities=7%  Similarity=0.081  Sum_probs=70.1

Q ss_pred             hhhhhHHHHhhhh----cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------eCHhH
Q psy450           30 HHLNDIVKINLKK----YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------IRKQI   99 (478)
Q Consensus        30 ~~~~~if~~~a~~----~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------ld~al   99 (478)
                      ..+|.+++ .+..    ....|++|||+|.+-.. ..|.++..++.             .+.+.++|+.      +.|.+
T Consensus        91 ~~ir~l~~-~~~~~~~~~~~kvviIdead~l~~~-a~naLLk~lEe-------------p~~~~~~Il~t~~~~~l~~ti  155 (334)
T 1a5t_A           91 DAVREVTE-KLNEHARLGGAKVVWVTDAALLTDA-AANALLKTLEE-------------PPAETWFFLATREPERLLATL  155 (334)
T ss_dssp             HHHHHHHH-HTTSCCTTSSCEEEEESCGGGBCHH-HHHHHHHHHTS-------------CCTTEEEEEEESCGGGSCHHH
T ss_pred             HHHHHHHH-HHhhccccCCcEEEEECchhhcCHH-HHHHHHHHhcC-------------CCCCeEEEEEeCChHhCcHHH
Confidence            35677776 5542    34689999999998643 46778877773             1122233333      89999


Q ss_pred             HhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHH
Q psy450          100 QKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVR  159 (478)
Q Consensus       100 ~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~  159 (478)
                      ++|. ..++|+.|+.++..++++...       ..+.+.++.++..+.| +......+++
T Consensus       156 ~SRc-~~~~~~~~~~~~~~~~L~~~~-------~~~~~~~~~l~~~s~G-~~r~a~~~l~  206 (334)
T 1a5t_A          156 RSRC-RLHYLAPPPEQYAVTWLSREV-------TMSQDALLAALRLSAG-SPGAALALFQ  206 (334)
T ss_dssp             HTTS-EEEECCCCCHHHHHHHHHHHC-------CCCHHHHHHHHHHTTT-CHHHHHHTTS
T ss_pred             hhcc-eeeeCCCCCHHHHHHHHHHhc-------CCCHHHHHHHHHHcCC-CHHHHHHHhc
Confidence            9998 579999999999888887654       1233444778877765 3333433333

>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=96.33  E-value=0.0021  Score=62.32  Aligned_cols=70  Identities=14%  Similarity=0.219  Sum_probs=45.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC--cEEEEechhhhh-----h---hhcchHHHHHHHHHHhHhCCCeEEEEcCCc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM--NFLAVKGPELLN-----K---YIGQSEENIRNVFLKARSAAPCVVFFDELD  303 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~--~~~~v~~~~l~~-----~---~~g~~~~~~~~~~~~a~~~~p~il~iDeid  303 (478)
                      ...+++.||+|+||||++++++.....  ..+.++......     .   +........+..+..+....|.+|++||.-
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~~~~~g~i~i~~~~e~~~~~~~~~i~~~~ggg~~~r~~la~aL~~~p~ilildE~~  250 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGELR  250 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGSCTTSCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEECCCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcCCCcEEEECCeeccccccchhEEEEEeCCChhHHHHHHHHhhhCCCEEEEcCCC
Confidence            345999999999999999999987632  344444321100     0   110012234556677777889999999964

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.32  E-value=0.038  Score=56.46  Aligned_cols=34  Identities=18%  Similarity=0.219  Sum_probs=27.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      +..|+++|++|+||||++..+|..+   |..+..+++
T Consensus       101 ~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~  137 (504)
T 2j37_W          101 QNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICA  137 (504)
T ss_dssp             -EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEec
Confidence            5678999999999999999999766   666766665

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.31  E-value=0.023  Score=57.40  Aligned_cols=37  Identities=22%  Similarity=0.151  Sum_probs=28.4

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEec
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKG  267 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~  267 (478)
                      |.. +.-+++.|+||+|||+++..+|...    +.++++++.
T Consensus       196 Gl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~sl  237 (444)
T 2q6t_A          196 TLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSL  237 (444)
T ss_dssp             CCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEES
T ss_pred             CcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEC
Confidence            444 4457899999999999999887643    567777765

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.31  E-value=0.016  Score=61.65  Aligned_cols=72  Identities=17%  Similarity=0.240  Sum_probs=42.1

Q ss_pred             cCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhhhcchHHHHHHHH
Q psy450          210 GGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKYIGQSEENIRNVF  286 (478)
Q Consensus       210 ~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~~g~~~~~~~~~~  286 (478)
                      .-.+++++.+..++..        ..-.|++||||||||+++-.+...+   +.+++.+..+          ...+..+.
T Consensus       189 ~LN~~Q~~AV~~al~~--------~~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~T----------N~AvD~i~  250 (646)
T 4b3f_X          189 CLDTSQKEAVLFALSQ--------KELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPS----------NIAVDNLV  250 (646)
T ss_dssp             TCCHHHHHHHHHHHHC--------SSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESS----------HHHHHHHH
T ss_pred             CCCHHHHHHHHHHhcC--------CCceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEcCc----------hHHHHHHH
Confidence            3467777777766532        1237899999999998655544333   5566555543          33444555


Q ss_pred             HHhHhCCCeEEEE
Q psy450          287 LKARSAAPCVVFF  299 (478)
Q Consensus       287 ~~a~~~~p~il~i  299 (478)
                      .+.......++-+
T Consensus       251 erL~~~~~~ilRl  263 (646)
T 4b3f_X          251 ERLALCKQRILRL  263 (646)
T ss_dssp             HHHHHTTCCEEEC
T ss_pred             HHHHhcCCceEEe
Confidence            5544444445443

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.29  E-value=0.0011  Score=59.64  Aligned_cols=26  Identities=15%  Similarity=0.193  Sum_probs=23.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +..|+|.|++|+||||+++.+++.++
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~   34 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALC   34 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45689999999999999999999864

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=96.27  E-value=0.02  Score=61.99  Aligned_cols=23  Identities=22%  Similarity=0.262  Sum_probs=18.8

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      ..+++.||+|+|||+++..+...
T Consensus       110 ~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A          110 QIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999977776543

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.25  E-value=0.0032  Score=56.91  Aligned_cols=30  Identities=33%  Similarity=0.435  Sum_probs=25.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +.-|.|.|++|+||||+++.++. +|.+++.
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~-lg~~~id   33 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD-LGINVID   33 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH-TTCEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH-cCCEEEE
Confidence            34588999999999999999998 7776544

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=96.25  E-value=0.0034  Score=56.72  Aligned_cols=31  Identities=39%  Similarity=0.567  Sum_probs=26.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +..+.|.|++|||||++++.++..+|.+++.
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~~g~~~~~   33 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASELSMIYVD   33 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCceec
Confidence            3458999999999999999999999977654

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.24  E-value=0.0024  Score=57.21  Aligned_cols=26  Identities=35%  Similarity=0.546  Sum_probs=23.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-++|.||||+||||+++.++..++
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            45689999999999999999999875

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.21  E-value=0.0038  Score=55.10  Aligned_cols=28  Identities=32%  Similarity=0.584  Sum_probs=23.4

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcE
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNF  262 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~  262 (478)
                      +.|+|.||+|+|||++++.+.......+
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~~~~   29 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCCCe
Confidence            3489999999999999999988765433

>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=96.21  E-value=0.0028  Score=60.40  Aligned_cols=35  Identities=17%  Similarity=0.208  Sum_probs=28.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEech
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGP  268 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~  268 (478)
                      +.-+++.||+|+|||+++..+|+.++..++..+.-
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~   37 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRLNGEVISGDSM   37 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTTEEEEECCGG
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhCccceeecCcc
Confidence            34578999999999999999999998777665543

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.21  E-value=0.0039  Score=56.03  Aligned_cols=26  Identities=31%  Similarity=0.563  Sum_probs=23.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-+.|.||+|+||||+++.|+..+.
T Consensus        22 g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           22 RQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            55678999999999999999998875

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=96.20  E-value=0.0036  Score=55.42  Aligned_cols=70  Identities=19%  Similarity=0.162  Sum_probs=41.5

Q ss_pred             CceEEEeCCCCChHH-HHHHHHHHHh--CCcEEEEech---hhhhhh---hcc-----hHHHHHHHHHHhHhCCCeEEEE
Q psy450          234 RSGLLLYGPPGTGKT-LIAKAVATEC--RMNFLAVKGP---ELLNKY---IGQ-----SEENIRNVFLKARSAAPCVVFF  299 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT-~la~~la~~~--~~~~~~v~~~---~l~~~~---~g~-----~~~~~~~~~~~a~~~~p~il~i  299 (478)
                      ..-.+++||.|+||| +|.+++.+..  +..++.++..   .+....   .|.     ......+++...+  ...+|+|
T Consensus        20 g~l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp~~D~R~~~~i~S~~g~~~~A~~~~~~~d~~~~~~--~~DvIlI   97 (195)
T 1w4r_A           20 GQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEAL--GVAVIGI   97 (195)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEETTCCCGGGSCCHHHHHHSEEEEESSGGGGHHHHH--TCSEEEE
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEccccCccchhhhhhccCCcccceecCCHHHHHHhcc--CCCEEEE
Confidence            344788999999999 8888887644  6777777643   111100   000     0011122333322  3469999


Q ss_pred             cCCccc
Q psy450          300 DELDSL  305 (478)
Q Consensus       300 Deid~l  305 (478)
                      ||++-+
T Consensus        98 DEaQFf  103 (195)
T 1w4r_A           98 DEGQFF  103 (195)
T ss_dssp             SSGGGC
T ss_pred             Echhhh
Confidence            999988

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.15  E-value=0.0041  Score=57.09  Aligned_cols=31  Identities=26%  Similarity=0.542  Sum_probs=27.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      +..+.|.|++|+|||++++.++..+|.+++.
T Consensus        16 ~~~i~i~G~~gsGKst~~~~l~~~lg~~~~d   46 (236)
T 1q3t_A           16 TIQIAIDGPASSGKSTVAKIIAKDFGFTYLD   46 (236)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCceec
Confidence            4468899999999999999999999977654

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=96.15  E-value=0.019  Score=51.26  Aligned_cols=24  Identities=29%  Similarity=0.535  Sum_probs=20.1

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .++++.+|+|+|||.++-..+...
T Consensus        49 ~~~li~~~tGsGKT~~~~~~~~~~   72 (216)
T 3b6e_A           49 KNIIICLPTGSGKTRVAVYIAKDH   72 (216)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHHHHHH
Confidence            469999999999999888776643

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=96.15  E-value=0.03  Score=57.84  Aligned_cols=106  Identities=20%  Similarity=0.226  Sum_probs=61.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechh----hhhhh--hc----------------------chHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPE----LLNKY--IG----------------------QSEENI  282 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~----l~~~~--~g----------------------~~~~~~  282 (478)
                      ...++|.||+|+|||++++.++...   |.+++++...+    +....  .|                      ......
T Consensus       281 G~i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~~~ee~~~~l~~~~~~~g~~~~~~~~~g~~~~~~~~p~~LS~g~~q  360 (525)
T 1tf7_A          281 DSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGLEDHL  360 (525)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSCHHHHHHHHHTTSCCHHHHHHTTSEEECCCCGGGSCHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEEEeCCHHHHHHHHHHcCCCHHHHHhCCCEEEEEeccccCCHHHHH
Confidence            4458899999999999999998654   44555554321    11000  00                      123345


Q ss_pred             HHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          283 RNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       283 ~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                      +.++..+....|.+|++|-+..+.....     ....+..+..++..+.   .. ++.+|.++...
T Consensus       361 ~~~~a~~l~~~p~llilDp~~~Ld~~~~-----~~~~~~~i~~ll~~l~---~~-g~tvilvsh~~  417 (525)
T 1tf7_A          361 QIIKSEINDFKPARIAIDSLSALARGVS-----NNAFRQFVIGVTGYAK---QE-EITGLFTNTSD  417 (525)
T ss_dssp             HHHHHHHHTTCCSEEEEECHHHHTSSSC-----HHHHHHHHHHHHHHHH---HT-TCEEEEEEECS
T ss_pred             HHHHHHHHhhCCCEEEEcChHHHHhhCC-----hHHHHHHHHHHHHHHH---hC-CCEEEEEECcc
Confidence            5566666778899999997766664311     1113444555555553   22 34455555543

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.14  E-value=0.0038  Score=56.21  Aligned_cols=37  Identities=16%  Similarity=0.287  Sum_probs=29.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC----CcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR----MNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~----~~~~~v~~~~l  270 (478)
                      +..++|.|++|+||||+++.++..++    .+++.++...+
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~d~~   65 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNI   65 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECChHH
Confidence            45688999999999999999998764    55777775444

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.13  E-value=0.0038  Score=55.01  Aligned_cols=34  Identities=24%  Similarity=0.388  Sum_probs=25.7

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      -+.|.||+|+||||+++.++...+. .+.++..++
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~~~g-~~~i~~d~~   37 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQLDN-SAYIEGDII   37 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSS-EEEEEHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCC-eEEEcccch
Confidence            4789999999999999999986543 244555444

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.10  E-value=0.0033  Score=55.07  Aligned_cols=26  Identities=31%  Similarity=0.521  Sum_probs=22.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-+.|.||+|+||||+++.++....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            44588999999999999999998764

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.09  E-value=0.0031  Score=61.05  Aligned_cols=33  Identities=21%  Similarity=0.337  Sum_probs=27.8

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEEec
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG  267 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~  267 (478)
                      .-|+|.||+|+|||++++.++..++..++..+.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~~~iis~Ds   40 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFNGEIISGDS   40 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTEEEEECCS
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcCCceecccc
Confidence            358899999999999999999999876665543

>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=96.05  E-value=0.017  Score=58.01  Aligned_cols=35  Identities=26%  Similarity=0.304  Sum_probs=28.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEech
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP  268 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~  268 (478)
                      +..++++|++|+||||++..+|..+   |..+..+++.
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D  136 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAAD  136 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Confidence            4579999999999999999998876   4666666653

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.05  E-value=0.008  Score=58.78  Aligned_cols=24  Identities=21%  Similarity=0.253  Sum_probs=20.8

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+-|.||+|+||||++++++...
T Consensus        55 ei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           55 QIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEEcCCCchHHHHHHHHhcCC
Confidence            347899999999999999998754

>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=96.04  E-value=0.0048  Score=61.86  Aligned_cols=30  Identities=17%  Similarity=0.251  Sum_probs=26.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      +.-|++.|+||+||||+++.++..++..++
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~~~~~~i  287 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVSAGYVHV  287 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGGGTCEEC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhcCcEEE
Confidence            556889999999999999999998876554

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=96.03  E-value=0.026  Score=51.57  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=17.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVA  255 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la  255 (478)
                      ...+++.||+|||||++...+.
T Consensus        76 g~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           76 NSVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCcHHhHHHHH
Confidence            4569999999999998766553

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=96.01  E-value=0.0061  Score=54.05  Aligned_cols=71  Identities=15%  Similarity=0.174  Sum_probs=42.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEech--h------hhhhhhcch-----HHHHHHHHHHhHhCCCeEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP--E------LLNKYIGQS-----EENIRNVFLKARSAAPCVV  297 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~--~------l~~~~~g~~-----~~~~~~~~~~a~~~~p~il  297 (478)
                      ..-.+++||.|+|||+.+-.++..+   +..++.+...  .      +.+ ..|..     .....+++..+.. ...+|
T Consensus         8 g~i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k~~~d~r~~~~~i~s-~~g~~~~a~~~~~~~~i~~~~~~-~~dvV   85 (191)
T 1xx6_A            8 GWVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVS-HMGEKEQAVAIKNSREILKYFEE-DTEVI   85 (191)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEEC-TTSCEEECEEESSSTHHHHHCCT-TCSEE
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCccchHHHHHh-hcCCceeeEeeCCHHHHHHHHhc-cCCEE
Confidence            3457889999999999888887766   6666665421  0      000 01100     0001244544432 35799


Q ss_pred             EEcCCcccc
Q psy450          298 FFDELDSLA  306 (478)
Q Consensus       298 ~iDeid~l~  306 (478)
                      +|||++.+.
T Consensus        86 iIDEaqfl~   94 (191)
T 1xx6_A           86 AIDEVQFFD   94 (191)
T ss_dssp             EECSGGGSC
T ss_pred             EEECCCCCC
Confidence            999998865

>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=96.01  E-value=0.0038  Score=59.48  Aligned_cols=34  Identities=21%  Similarity=0.368  Sum_probs=26.1

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh-CCcEEEEechhh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC-RMNFLAVKGPEL  270 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~-~~~~~~v~~~~l  270 (478)
                      .-|+|.|+||+||||+++.+++.+ +.  ..++...+
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~~~~--~~i~~D~~   37 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKNPGF--YNINRDDY   37 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTE--EEECHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhCCCc--EEecccHH
Confidence            458999999999999999999864 54  44444444

>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=96.00  E-value=0.0097  Score=56.48  Aligned_cols=26  Identities=19%  Similarity=0.372  Sum_probs=23.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-+.+.||+|+||||+++.++..++
T Consensus        31 ~~ii~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           31 PLFIFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhh
Confidence            55688999999999999999998875

>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=96.00  E-value=0.0036  Score=55.48  Aligned_cols=32  Identities=25%  Similarity=0.390  Sum_probs=26.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      ..+++|.||+|+|||++|..+++..+ .++..+
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g~-~iIsdD   65 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRGH-RLIADD   65 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTTC-EEEESS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhCC-eEEecc
Confidence            56799999999999999999998876 555444

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.99  E-value=0.0044  Score=58.59  Aligned_cols=34  Identities=24%  Similarity=0.281  Sum_probs=27.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      +.-|.|+|++||||||+++.++ .+|.+++  ++..+
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La-~lg~~~i--d~D~~  108 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK-NLGAYII--DSDHL  108 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH-HHTCEEE--EHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH-HCCCcEE--ehhHH
Confidence            4568999999999999999999 6787654  44444

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=95.97  E-value=0.0058  Score=58.47  Aligned_cols=128  Identities=12%  Similarity=0.080  Sum_probs=69.1

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe--------------eCHhHHhccccEEEe
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL--------------IRKQIQKLFLKTINV  109 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via--------------ld~al~rRf~~~i~~  109 (478)
                      ..++|||||++.+... ....++..++.....+.  .. .......+.||+              +++++..||. .+.+
T Consensus        96 ~~g~L~LDEi~~l~~~-~q~~Ll~~l~~~~~~~~--g~-~~~~~~~~riI~atn~~l~~~v~~g~fr~~L~~Rl~-~~~i  170 (304)
T 1ojl_A           96 DGGTLFLDEIGDISPL-MQVRLLRAIQEREVQRV--GS-NQTISVDVRLIAATHRDLAEEVSAGRFRQDLYYRLN-VVAI  170 (304)
T ss_dssp             TTSEEEEESCTTCCHH-HHHHHHHHHHSSBCCBT--TB-CCCCBCCCEEEEEESSCHHHHHHHTSSCHHHHHHHS-SEEE
T ss_pred             CCCEEEEeccccCCHH-HHHHHHHHHhcCEeeec--CC-cccccCCeEEEEecCccHHHHHHhCCcHHHHHhhcC-eeEE
Confidence            3689999999998654 34556666664211100  00 001122344444              3566777885 5666


Q ss_pred             CCCCHHHH----HHHHHHHHhhc----CC-CCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHH
Q psy450          110 LPLTEPER----RLLIQYQLDCL----GG-DYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKED  180 (478)
Q Consensus       110 ~~P~~~~r----~~il~~~~~~~----~~-~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d  180 (478)
                      ..|...+|    ..+++.++...    +. ....+.+.++.+....-.-+..+++++++.++..+      ....|+.+|
T Consensus       171 ~lPpL~eR~edi~~l~~~~l~~~~~~~~~~~~~~s~~a~~~L~~~~wpGnvReL~~~l~~~~~~~------~~~~i~~~~  244 (304)
T 1ojl_A          171 EMPSLRQRREDIPLLADHFLRRFAERNRKVVKGFTPQAMDLLIHYDWPGNIRELENAIERAVVLL------TGEYISERE  244 (304)
T ss_dssp             ECCCSGGGGGGHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHHCCCSSHHHHHHHHHHHHHHHC------CSSSBCGGG
T ss_pred             eccCHHHhHhhHHHHHHHHHHHHHHHhccCccCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHhC------CCCcccHHh
Confidence            66665544    44666665442    11 12344455566766552335567777777666532      234577666


Q ss_pred             HH
Q psy450          181 FQ  182 (478)
Q Consensus       181 ~~  182 (478)
                      +.
T Consensus       245 l~  246 (304)
T 1ojl_A          245 LP  246 (304)
T ss_dssp             SC
T ss_pred             hh
Confidence            63

>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=95.97  E-value=0.018  Score=59.28  Aligned_cols=39  Identities=21%  Similarity=0.234  Sum_probs=30.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLN  272 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~  272 (478)
                      +.-|+++|.||+||||+++.+++.+   +.....++..++..
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La~~L~~~~~d~~v~s~D~~r~   76 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLTRYLNWIGVPTKVFNVGEYRR   76 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEecccHHHH
Confidence            4468899999999999999999988   44555666655543

>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=95.95  E-value=0.0039  Score=56.10  Aligned_cols=26  Identities=31%  Similarity=0.451  Sum_probs=22.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-+.|.||+|+||||+++.++..+.
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            45588999999999999999998874

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=95.94  E-value=0.0048  Score=55.20  Aligned_cols=29  Identities=21%  Similarity=0.291  Sum_probs=26.8

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      -|.|.|++|||||++++.+|+.+|.+++.
T Consensus         8 iI~i~g~~GsGk~ti~~~la~~lg~~~~D   36 (201)
T 3fdi_A            8 IIAIGREFGSGGHLVAKKLAEHYNIPLYS   36 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTTCCEEC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCcCEEC
Confidence            48899999999999999999999999873

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.90  E-value=0.0039  Score=55.64  Aligned_cols=25  Identities=28%  Similarity=0.444  Sum_probs=22.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +.-+.|.||+|+||||+++.++..+
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            4458899999999999999999876

>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=95.88  E-value=0.0036  Score=56.07  Aligned_cols=29  Identities=21%  Similarity=0.217  Sum_probs=23.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh-CCcE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC-RMNF  262 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~-~~~~  262 (478)
                      +.-+.+.|++|+||||+++.++..+ +..+
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~~~~~~~   50 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKHLPNCSV   50 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTSTTEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCcEE
Confidence            3457899999999999999999877 4443

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=95.87  E-value=0.029  Score=54.15  Aligned_cols=25  Identities=24%  Similarity=0.243  Sum_probs=22.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +.-+.|.||+|+||||+++.++..+
T Consensus       129 g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          129 PYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5668899999999999999999866

>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=95.87  E-value=0.0072  Score=63.34  Aligned_cols=38  Identities=21%  Similarity=0.368  Sum_probs=32.7

Q ss_pred             CCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhh
Q psy450          233 KRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPEL  270 (478)
Q Consensus       233 ~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l  270 (478)
                      ++..|+|.|.||+||||+++.+++.+   |.+++.++...+
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lDgD~i   91 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNI   91 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEESHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEechHHh
Confidence            36679999999999999999999999   999988875443

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=95.86  E-value=0.022  Score=58.58  Aligned_cols=37  Identities=8%  Similarity=0.014  Sum_probs=28.7

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEec
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKG  267 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~  267 (478)
                      |.. ..-+++.|+||+|||+++..+|...    +.++++++.
T Consensus       238 Gl~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~  279 (503)
T 1q57_A          238 GARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAML  279 (503)
T ss_dssp             CCCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEES
T ss_pred             ccCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEec
Confidence            444 4558899999999999999998765    457777765

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.84  E-value=0.005  Score=54.85  Aligned_cols=26  Identities=23%  Similarity=0.455  Sum_probs=22.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-+.|.||+|+||||+++.++....
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~~   32 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKALA   32 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            34578999999999999999998763

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=95.83  E-value=0.035  Score=52.75  Aligned_cols=69  Identities=19%  Similarity=0.055  Sum_probs=44.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhh-------hh------------hc-chHHHHHHHHHHhH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLN-------KY------------IG-QSEENIRNVFLKAR  290 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~-------~~------------~g-~~~~~~~~~~~~a~  290 (478)
                      +..+.+.|++|+||||++..+|..+   +..+..+++.....       .+            .+ .....+...+..++
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~~~~  177 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFL  177 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHHHH
Confidence            4567889999999999999998766   66676666531100       00            01 12223345666665


Q ss_pred             hCCCeEEEEcCC
Q psy450          291 SAAPCVVFFDEL  302 (478)
Q Consensus       291 ~~~p~il~iDei  302 (478)
                      .....+++||-.
T Consensus       178 ~~~~D~ViIDTp  189 (297)
T 1j8m_F          178 SEKMEIIIVDTA  189 (297)
T ss_dssp             HTTCSEEEEECC
T ss_pred             hCCCCEEEEeCC
Confidence            456679999974

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=95.81  E-value=0.088  Score=46.54  Aligned_cols=18  Identities=39%  Similarity=0.418  Sum_probs=15.3

Q ss_pred             ceEEEeCCCCChHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAK  252 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~  252 (478)
                      +++++.+|+|+|||..+-
T Consensus        39 ~~~li~~~TGsGKT~~~~   56 (207)
T 2gxq_A           39 KDLIGQARTGTGKTLAFA   56 (207)
T ss_dssp             CCEEEECCTTSCHHHHHH
T ss_pred             CCEEEECCCCChHHHHHH
Confidence            569999999999998643

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=95.81  E-value=0.0062  Score=54.21  Aligned_cols=26  Identities=31%  Similarity=0.558  Sum_probs=23.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-+.|.||+|+|||++++.++....
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            55688999999999999999998765

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=95.81  E-value=0.04  Score=55.86  Aligned_cols=25  Identities=28%  Similarity=0.335  Sum_probs=22.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +.-+.|.|++|+||||+++.|+..+
T Consensus       293 GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          293 PFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCcccHHHHHHHHHHHh
Confidence            4568899999999999999999866

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.79  E-value=0.0046  Score=63.61  Aligned_cols=70  Identities=14%  Similarity=0.273  Sum_probs=44.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC--CcEEEEechh-hhhh---h--------hcchHHHHHHHHHHhHhCCCeEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR--MNFLAVKGPE-LLNK---Y--------IGQSEENIRNVFLKARSAAPCVVFF  299 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~--~~~~~v~~~~-l~~~---~--------~g~~~~~~~~~~~~a~~~~p~il~i  299 (478)
                      +.++++.||+|+||||++++++..+.  ...+.+.... +...   .        .+.....+...+..+....|.++++
T Consensus       260 g~~i~I~GptGSGKTTlL~aL~~~i~~~~giitied~~E~~~~~~~~v~~~~r~~~~~~~~~~~~~l~~~LR~~PD~iiv  339 (511)
T 2oap_1          260 KFSAIVVGETASGKTTTLNAIMMFIPPDAKVVSIEDTREIKLYHENWIAEVTRTGMGEGEIDMYDLLRAALRQRPDYIIV  339 (511)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCCCSSEEEEECBCCSSSCCBCHHHHHHTTGGGCCSEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCCCCCCEEEEcCcccccCCCCCeEEEEeecccccCCcCHHHHHHHhhccCCCeEEe
Confidence            44599999999999999999988774  3455554322 1100   0        0111113445566666788999999


Q ss_pred             cCCc
Q psy450          300 DELD  303 (478)
Q Consensus       300 Deid  303 (478)
                      .|+-
T Consensus       340 gEir  343 (511)
T 2oap_1          340 GEVR  343 (511)
T ss_dssp             SCCC
T ss_pred             CCcC
Confidence            9963

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.73  E-value=0.03  Score=54.16  Aligned_cols=34  Identities=15%  Similarity=0.121  Sum_probs=27.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      ..-+++.|+||+|||+++..+|...   +.++.+++.
T Consensus        46 G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSl   82 (338)
T 4a1f_A           46 GSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSL   82 (338)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEES
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            3458899999999999999998764   667777654

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.73  E-value=0.026  Score=54.17  Aligned_cols=26  Identities=12%  Similarity=0.107  Sum_probs=23.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      |.-+.|.||+||||||+++.++..++
T Consensus        92 p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           92 PYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            55688999999999999999998875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.73  E-value=0.0056  Score=54.90  Aligned_cols=33  Identities=21%  Similarity=0.182  Sum_probs=25.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      +.-+.|.||+|+||||+++.++..++..+.++.
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~~~~~~i~~v~   38 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALARTLGERVALLP   38 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHGGGEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhCCCeEEEe
Confidence            445789999999999999999998873333444

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.72  E-value=0.035  Score=56.00  Aligned_cols=37  Identities=27%  Similarity=0.188  Sum_probs=28.7

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      |.. +.-+++.|+||+|||+++..+|...   |.++.+++.
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSl  233 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSL  233 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECS
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEEC
Confidence            444 4458899999999999999887655   667777764

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=95.69  E-value=0.035  Score=60.92  Aligned_cols=22  Identities=32%  Similarity=0.409  Sum_probs=19.3

Q ss_pred             ceEEEeCCCCChHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .-+.|+||.|+||||+.+.++.
T Consensus       674 ~i~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          674 RVMIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             CEEEEESCCCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCchHHHHHHHHH
Confidence            3478999999999999999874

>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=95.67  E-value=0.031  Score=51.97  Aligned_cols=116  Identities=16%  Similarity=0.003  Sum_probs=60.1

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe--------------eCHhHHhccccEEEe
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL--------------IRKQIQKLFLKTINV  109 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via--------------ld~al~rRf~~~i~~  109 (478)
                      ..++|||||++.+... ....++..++.....+.  .. .......+.+|+              +++++.+||.. +.+
T Consensus       100 ~~~~l~lDEi~~l~~~-~q~~Ll~~l~~~~~~~~--g~-~~~~~~~~~iI~atn~~~~~~~~~~~~~~~L~~Rl~~-~~i  174 (265)
T 2bjv_A          100 DGGTLFLDELATAPMM-VQEKLLRVIEYGELERV--GG-SQPLQVNVRLVCATNADLPAMVNEGTFRADLLDALAF-DVV  174 (265)
T ss_dssp             TTSEEEEESGGGSCHH-HHHHHHHHHHHCEECCC--CC---CEECCCEEEEEESSCHHHHHHHTSSCHHHHHHHCS-EEE
T ss_pred             CCcEEEEechHhcCHH-HHHHHHHHHHhCCeecC--CC-cccccCCeEEEEecCcCHHHHHHcCCccHHHHHhhcC-cEE
Confidence            4689999999998754 34556666663211000  00 000112233444              35778889964 455


Q ss_pred             CCCCHHH----HHHHHHHHHhh----cCCCC--CCChhHHHHHHHhcCCCCHHHHHHHHHHHHHH
Q psy450          110 LPLTEPE----RRLLIQYQLDC----LGGDY--GFDASLVEYLSSVTSGFERHDLTCLVRLSVKN  164 (478)
Q Consensus       110 ~~P~~~~----r~~il~~~~~~----~~~~~--~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~  164 (478)
                      ..|...+    ...+++.++..    .+.+.  ..+.+.++.+....-..+..+++++++.++..
T Consensus       175 ~lp~L~~R~~di~~l~~~~l~~~~~~~~~~~~~~~~~~a~~~L~~~~~~gn~reL~~~l~~~~~~  239 (265)
T 2bjv_A          175 QLPPLRERESDIMLMAEYFAIQMCREIKLPLFPGFTERARETLLNYRWPGNIRELKNVVERSVYR  239 (265)
T ss_dssp             ECCCGGGCHHHHHHHHHHHHHHHHHHTTCSSCCCBCHHHHHHHHHSCCTTHHHHHHHHHHHHHHH
T ss_pred             eCCChhhhhHHHHHHHHHHHHHHHHHhCCCcccCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHh
Confidence            5555444    44455555433    22211  33444446665543334556777777776654

>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=95.65  E-value=0.036  Score=57.77  Aligned_cols=38  Identities=21%  Similarity=0.234  Sum_probs=31.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC----CcEEEEechhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR----MNFLAVKGPELL  271 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~----~~~~~v~~~~l~  271 (478)
                      +..|+|.|+||+||||+|+.+++.++    .+++.++...+.
T Consensus       396 ~~~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD~D~ir  437 (573)
T 1m8p_A          396 GFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLGDTVR  437 (573)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHHHHH
T ss_pred             ceEEEeecCCCCCHHHHHHHHHHHhcccCCceEEEECcHHHH
Confidence            55689999999999999999999986    778888765543

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.65  E-value=0.0065  Score=54.15  Aligned_cols=26  Identities=31%  Similarity=0.524  Sum_probs=22.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +..+.|.||+|+||||+++.++....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            34589999999999999999988663

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.63  E-value=0.055  Score=52.00  Aligned_cols=34  Identities=26%  Similarity=0.261  Sum_probs=27.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      +..++++|++|+||||++..+|..+   +..+..+++
T Consensus       105 ~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~  141 (320)
T 1zu4_A          105 LNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAA  141 (320)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            5568899999999999999998765   556666654

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=95.63  E-value=0.0066  Score=59.97  Aligned_cols=33  Identities=15%  Similarity=0.320  Sum_probs=27.7

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEEec
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG  267 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~  267 (478)
                      .-+++.||+|+|||+++..+|..++..++..+.
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~~~iis~Ds   35 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFNGEVINSDS   35 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHTEEEEECCT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCCCeEeecCc
Confidence            347899999999999999999999877666543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.60  E-value=0.012  Score=51.49  Aligned_cols=47  Identities=21%  Similarity=0.379  Sum_probs=28.7

Q ss_pred             cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh
Q psy450          212 LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       212 ~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .....+.+.+.+.............+++.|++|+|||+++..+....
T Consensus        26 ~~~l~~~l~~~~~~~~~~~~~~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           26 ISQWREWIDEKLGGGSGGGGSYQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CHHHHHHHHHHC--------CCCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHhhcCCCCCCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44555555554443332222235579999999999999999998643

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=95.53  E-value=0.099  Score=50.53  Aligned_cols=33  Identities=15%  Similarity=0.150  Sum_probs=23.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEec
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKG  267 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~  267 (478)
                      .++++.+|+|+|||..+-..+...     +...+.+.+
T Consensus        45 ~~~l~~~~TGsGKT~~~~~~~~~~~~~~~~~~~lil~P   82 (367)
T 1hv8_A           45 YNIVAQARTGSGKTASFAIPLIELVNENNGIEAIILTP   82 (367)
T ss_dssp             SEEEEECCSSSSHHHHHHHHHHHHSCSSSSCCEEEECS
T ss_pred             CCEEEECCCCChHHHHHHHHHHHHhcccCCCcEEEEcC
Confidence            579999999999999866554433     344555443

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=95.47  E-value=0.035  Score=52.77  Aligned_cols=69  Identities=29%  Similarity=0.249  Sum_probs=43.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechh----hhh---hh--------h----c-chHHHHHHHHHHhH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPE----LLN---KY--------I----G-QSEENIRNVFLKAR  290 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~----l~~---~~--------~----g-~~~~~~~~~~~~a~  290 (478)
                      +..+.+.|++|+||||++..+|..+   +..+..++..-    ...   .+        .    + ......+..+..+.
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~~~~  177 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKAR  177 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHHHHH
Confidence            5567888999999999999998765   55666555421    000   00        0    1 11222355666665


Q ss_pred             hCCCeEEEEcCC
Q psy450          291 SAAPCVVFFDEL  302 (478)
Q Consensus       291 ~~~p~il~iDei  302 (478)
                      ...+.+|+||+-
T Consensus       178 ~~~~D~viiDtp  189 (295)
T 1ls1_A          178 LEARDLILVDTA  189 (295)
T ss_dssp             HHTCCEEEEECC
T ss_pred             hCCCCEEEEeCC
Confidence            566789999985

>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=95.45  E-value=0.021  Score=51.30  Aligned_cols=32  Identities=13%  Similarity=0.029  Sum_probs=24.6

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      -.+++||.|+|||+.+-.++..+   +.+++.+..
T Consensus        30 l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~   64 (214)
T 2j9r_A           30 IEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKP   64 (214)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEe
Confidence            35689999999999888887655   667766653

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.45  E-value=0.011  Score=53.93  Aligned_cols=33  Identities=27%  Similarity=0.502  Sum_probs=27.3

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      +-|.|+||+||||.++.+++.++.+.+  +..+++
T Consensus        11 ~~~~G~pGsGKsT~a~~L~~~~g~~~i--s~gdll   43 (230)
T 3gmt_A           11 LILLGAPGAGKGTQANFIKEKFGIPQI--STGDML   43 (230)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCCEE--CHHHHH
T ss_pred             eeeECCCCCCHHHHHHHHHHHhCCCee--echHHH
Confidence            678999999999999999999987765  444444

>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=95.44  E-value=0.044  Score=53.04  Aligned_cols=89  Identities=10%  Similarity=0.089  Sum_probs=60.8

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-----eCHhHHhccccEEEeCCCCHHHHH
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-----IRKQIQKLFLKTINVLPLTEPERR  118 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-----ld~al~rRf~~~i~~~~P~~~~r~  118 (478)
                      .+.|++|||+|.+... ..+.++..++..            .....+++++     +.|++++|+. .+.|+.++.++..
T Consensus       110 ~~~viiiDe~~~l~~~-~~~~L~~~le~~------------~~~~~~il~~n~~~~i~~~i~sR~~-~~~~~~l~~~~~~  175 (340)
T 1sxj_C          110 GFKLIILDEADAMTNA-AQNALRRVIERY------------TKNTRFCVLANYAHKLTPALLSQCT-RFRFQPLPQEAIE  175 (340)
T ss_dssp             SCEEEEETTGGGSCHH-HHHHHHHHHHHT------------TTTEEEEEEESCGGGSCHHHHTTSE-EEECCCCCHHHHH
T ss_pred             CceEEEEeCCCCCCHH-HHHHHHHHHhcC------------CCCeEEEEEecCccccchhHHhhce-eEeccCCCHHHHH
Confidence            3689999999988653 345566556531            1122233333     8999999995 7899999999999


Q ss_pred             HHHHHHHhhcCCCCCCChhHHHHHHHhcCC
Q psy450          119 LLIQYQLDCLGGDYGFDASLVEYLSSVTSG  148 (478)
Q Consensus       119 ~il~~~~~~~~~~~~~~~~~i~~la~~t~G  148 (478)
                      +++...+...  .+..+.+.++.++..+.|
T Consensus       176 ~~l~~~~~~~--~~~i~~~~~~~i~~~s~G  203 (340)
T 1sxj_C          176 RRIANVLVHE--KLKLSPNAEKALIELSNG  203 (340)
T ss_dssp             HHHHHHHHTT--TCCBCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHc--CCCCCHHHHHHHHHHcCC
Confidence            9998888554  233444555778876654

>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=95.41  E-value=0.0086  Score=52.37  Aligned_cols=32  Identities=22%  Similarity=0.327  Sum_probs=27.9

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechh
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPE  269 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~  269 (478)
                      +|++|++|+|||++|..++.. +.+.+++....
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-~~~~~yiaT~~   33 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-APQVLYIATSQ   33 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-CSSEEEEECCC
T ss_pred             EEEECCCCCcHHHHHHHHHhc-CCCeEEEecCC
Confidence            789999999999999999987 88888887643

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.37  E-value=0.033  Score=55.89  Aligned_cols=69  Identities=17%  Similarity=0.197  Sum_probs=45.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEechhhhhh----------hh---------c-chHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKGPELLNK----------YI---------G-QSEENIRNVFLKA  289 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~~~l~~~----------~~---------g-~~~~~~~~~~~~a  289 (478)
                      ++.+++.|++|+||||++-.+|..+    |..+..+++......          ..         + .....+...+..+
T Consensus       100 ~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l~~~  179 (433)
T 2xxa_A          100 PAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKEA  179 (433)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHHHHH
Confidence            6678899999999999999998665    677777776432110          00         0 1122335566666


Q ss_pred             HhCCCeEEEEcCC
Q psy450          290 RSAAPCVVFFDEL  302 (478)
Q Consensus       290 ~~~~p~il~iDei  302 (478)
                      ......+++||-.
T Consensus       180 ~~~~~D~VIIDTp  192 (433)
T 2xxa_A          180 KLKFYDVLLVDTA  192 (433)
T ss_dssp             HHTTCSEEEEECC
T ss_pred             HhCCCCEEEEECC
Confidence            6555679999874

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=95.34  E-value=0.028  Score=56.23  Aligned_cols=23  Identities=30%  Similarity=0.346  Sum_probs=19.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .+-.++.|+||||||+++..++.
T Consensus       161 ~~v~~I~G~aGsGKTt~I~~~~~  183 (446)
T 3vkw_A          161 AKVVLVDGVPGCGKTKEILSRVN  183 (446)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHCC
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhc
Confidence            44578999999999999988764

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.33  E-value=0.0043  Score=55.70  Aligned_cols=24  Identities=21%  Similarity=0.418  Sum_probs=21.8

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCC
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      |.|.|++|+||||+++.++..++.
T Consensus         3 I~i~G~~GsGKsTl~~~L~~~l~~   26 (214)
T 1gtv_A            3 IAIEGVDGAGKRTLVEKLSGAFRA   26 (214)
T ss_dssp             EEEEEEEEEEHHHHHHHHHHHHHE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHh
Confidence            789999999999999999998853

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=95.32  E-value=0.041  Score=60.71  Aligned_cols=43  Identities=19%  Similarity=0.196  Sum_probs=34.1

Q ss_pred             cCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHH
Q psy450          210 GGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       210 ~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      +|.+..++.|.+.+...   .  ..+-+.++|+.|+|||++|+.+++.
T Consensus       131 VGRe~eLeeL~elL~~~---d--~~RVV~IvGmGGIGKTTLAk~Vy~d  173 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLEL---R--PAKNVLIDGVLGSGKTWVALDVCLS  173 (1221)
T ss_dssp             CCCHHHHHHHHHHHHHC---C--SSCEEEECCSTTSSHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHhcc---C--CCeEEEEEcCCCccHHHHHHHHHHh
Confidence            88888888888876532   1  1456889999999999999999853

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=95.32  E-value=0.011  Score=53.79  Aligned_cols=30  Identities=20%  Similarity=0.319  Sum_probs=26.8

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      .-|.+.|++|||||++++.+|+.+|.+++.
T Consensus        15 ~iI~i~g~~gsGk~~i~~~la~~lg~~~~d   44 (223)
T 3hdt_A           15 LIITIEREYGSGGRIVGKKLAEELGIHFYD   44 (223)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTCEEEC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHcCCcEEc
Confidence            357889999999999999999999998854

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.27  E-value=0.01  Score=50.78  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=22.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ..-+.|.||.|+||||++++++..+
T Consensus        33 Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           33 AIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            3457899999999999999999987

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.22  E-value=0.051  Score=56.13  Aligned_cols=34  Identities=26%  Similarity=0.182  Sum_probs=24.9

Q ss_pred             CceEEEeCCCCChHHHHHHHH--HHHh--CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAV--ATEC--RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~l--a~~~--~~~~~~v~~  267 (478)
                      ...++|.||+|+||||+++.+  +...  +...++++.
T Consensus        39 Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~g   76 (525)
T 1tf7_A           39 GRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTF   76 (525)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEE
Confidence            456899999999999999994  3332  444566654

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=95.22  E-value=0.01  Score=53.19  Aligned_cols=26  Identities=19%  Similarity=0.414  Sum_probs=22.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-+.|.||+|+||||++++++..+.
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            34478999999999999999998774

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=95.18  E-value=0.068  Score=58.77  Aligned_cols=22  Identities=18%  Similarity=0.235  Sum_probs=19.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .-++|+||.|+||||+.+.++-
T Consensus       663 ~i~~ItGpNGsGKSTlLr~ial  684 (934)
T 3thx_A          663 MFHIITGPNMGGKSTYIRQTGV  684 (934)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3478999999999999999853

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=95.18  E-value=0.41  Score=42.68  Aligned_cols=24  Identities=21%  Similarity=0.214  Sum_probs=18.6

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ..+++.+|+|+|||..+-..+-..
T Consensus        52 ~~~li~~~TGsGKT~~~~~~~~~~   75 (220)
T 1t6n_A           52 MDVLCQAKSGMGKTAVFVLATLQQ   75 (220)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCchhhhhhHHHHHh
Confidence            469999999999998766555433

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.17  E-value=0.011  Score=53.45  Aligned_cols=25  Identities=32%  Similarity=0.527  Sum_probs=22.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +.-+.|.||+|+||||+++.++...
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3458899999999999999999876

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.17  E-value=0.015  Score=50.31  Aligned_cols=27  Identities=22%  Similarity=0.412  Sum_probs=22.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN  261 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~  261 (478)
                      ..+++|.|+||+|||++|..+... |..
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r-G~~   42 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR-GHQ   42 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT-TCE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCe
Confidence            568999999999999999999874 443

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=95.17  E-value=0.2  Score=45.29  Aligned_cols=51  Identities=20%  Similarity=0.090  Sum_probs=30.0

Q ss_pred             CCCCcccccCcHHHHHHHHHHHH-hh--hhh----CCCCCceEEEeCCCCChHHHHHH
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFR-GV--NRT----SGLKRSGLLLYGPPGTGKTLIAK  252 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~-~~--~~~----~~~~~~~iLl~Gp~GtGKT~la~  252 (478)
                      +..+|+++.-.+...+.|.+.-. .+  .+.    .-...+++++.+|+|+|||..+-
T Consensus        23 ~~~~f~~~~l~~~l~~~l~~~~~~~~~~~Q~~~i~~~~~~~~~li~a~TGsGKT~~~~   80 (236)
T 2pl3_A           23 EITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFL   80 (236)
T ss_dssp             GCSBGGGSCCCHHHHHHHHHTTCCBCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHH
T ss_pred             ccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEEeCCCCcHHHHHH
Confidence            34568888777777766654210 00  000    00014569999999999998643

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.14  E-value=0.0079  Score=57.13  Aligned_cols=36  Identities=14%  Similarity=0.354  Sum_probs=24.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEechhh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR---MNFLAVKGPEL  270 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~~~~l  270 (478)
                      .-|.|.||+|+||||+++.+++.++   ..+..++..++
T Consensus         6 ~iIgItG~sGSGKSTva~~L~~~lg~~~~~~~vI~~D~~   44 (290)
T 1a7j_A            6 PIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF   44 (290)
T ss_dssp             CEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhcCCCeeEeecchh
Confidence            3488999999999999999998775   44555665444

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.13  E-value=0.012  Score=53.79  Aligned_cols=32  Identities=22%  Similarity=0.360  Sum_probs=26.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC--CcEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR--MNFLAV  265 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~--~~~~~v  265 (478)
                      +.-|.|.||||+||||+++.+++.++  ..++..
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~~l~~~~~~~~~   59 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYHRLVKDYDVIMT   59 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHTTTSCEEEE
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhcCCCceee
Confidence            44588999999999999999999986  455443

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=95.10  E-value=0.1  Score=50.91  Aligned_cols=33  Identities=18%  Similarity=0.269  Sum_probs=26.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~  266 (478)
                      ...+.+.|+||+|||+++..++..+   |.++..++
T Consensus        79 ~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~  114 (355)
T 3p32_A           79 AHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLA  114 (355)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEe
Confidence            4568999999999999999998776   55554444

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=95.10  E-value=0.013  Score=53.18  Aligned_cols=26  Identities=19%  Similarity=0.346  Sum_probs=22.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-+.|.||+|+||||+++.++....
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCC
Confidence            34578999999999999999998764

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.09  E-value=0.012  Score=54.22  Aligned_cols=27  Identities=15%  Similarity=0.155  Sum_probs=23.3

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCc
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMN  261 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~  261 (478)
                      .-+-|.||+|+||||+++.++..+|..
T Consensus        26 ~iigI~G~~GsGKSTl~k~L~~~lG~~   52 (245)
T 2jeo_A           26 FLIGVSGGTASGKSTVCEKIMELLGQN   52 (245)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHTGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhchh
Confidence            347799999999999999999988743

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=95.07  E-value=0.027  Score=56.26  Aligned_cols=92  Identities=20%  Similarity=0.265  Sum_probs=51.8

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC---cEEEEech-hhhhh-----h
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM---NFLAVKGP-ELLNK-----Y  274 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~---~~~~v~~~-~l~~~-----~  274 (478)
                      .++++++-....+..+..++.       .+...+++.||+|+||||++++++..+..   .++.+..+ ++...     .
T Consensus       144 ~~l~~Lg~~~~~~~~L~~l~~-------~~ggii~I~GpnGSGKTTlL~allg~l~~~~g~I~~~ed~ie~~~~~~~q~~  216 (418)
T 1p9r_A          144 LDLHSLGMTAHNHDNFRRLIK-------RPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIGQTQ  216 (418)
T ss_dssp             CCGGGSCCCHHHHHHHHHHHT-------SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCSSSEEEE
T ss_pred             CCHHHcCCCHHHHHHHHHHHH-------hcCCeEEEECCCCCCHHHHHHHHHhhcCCCCCEEEEecccchhccCCcceEE
Confidence            456677655555555554421       11344789999999999999999988742   34433221 11000     0


Q ss_pred             hc-chHHHHHHHHHHhHhCCCeEEEEcCC
Q psy450          275 IG-QSEENIRNVFLKARSAAPCVVFFDEL  302 (478)
Q Consensus       275 ~g-~~~~~~~~~~~~a~~~~p~il~iDei  302 (478)
                      .. ...-.....+..+....|.++++.|+
T Consensus       217 v~~~~g~~f~~~lr~~Lrq~pd~i~vgEi  245 (418)
T 1p9r_A          217 VNPRVDMTFARGLRAILRQDPDVVMVGEI  245 (418)
T ss_dssp             CBGGGTBCHHHHHHHHGGGCCSEEEESCC
T ss_pred             EccccCcCHHHHHHHHhccCCCeEEEcCc
Confidence            00 00011233444555567889999885

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.05  E-value=0.013  Score=51.75  Aligned_cols=23  Identities=35%  Similarity=0.635  Sum_probs=20.9

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .+.|.||+|+||||+++.++..+
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            37899999999999999999876

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=94.96  E-value=0.13  Score=46.06  Aligned_cols=48  Identities=17%  Similarity=0.086  Sum_probs=28.7

Q ss_pred             CCCcccccCcHHHHHHHHHHHH-hh--hhhC----CCCCceEEEeCCCCChHHHH
Q psy450          203 NVSWEDIGGLSKLKAEILSTFR-GV--NRTS----GLKRSGLLLYGPPGTGKTLI  250 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~-~~--~~~~----~~~~~~iLl~Gp~GtGKT~l  250 (478)
                      ..+|+++.-.+...+.+.+.-- .+  .+..    -...+++++.+|+|+|||..
T Consensus        13 ~~~f~~l~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~lv~~pTGsGKT~~   67 (224)
T 1qde_A           13 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGT   67 (224)
T ss_dssp             CCCGGGGTCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHH
T ss_pred             cCChhhcCCCHHHHHHHHHCCCCCCcHHHHHHHHHHhcCCCEEEECCCCCcHHHH
Confidence            4567777766666666654310 00  0000    00135699999999999987

>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=94.88  E-value=0.043  Score=52.55  Aligned_cols=26  Identities=15%  Similarity=0.097  Sum_probs=22.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-+.|.||+|+||||+++.|+..+.
T Consensus        90 g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           90 PFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCchHHHHHHHHHhhcc
Confidence            45578999999999999999998763

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=94.84  E-value=0.2  Score=44.78  Aligned_cols=19  Identities=26%  Similarity=0.223  Sum_probs=15.7

Q ss_pred             ceEEEeCCCCChHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKA  253 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~  253 (478)
                      +.+++.+|+|+|||..+-.
T Consensus        42 ~~~lv~a~TGsGKT~~~~~   60 (219)
T 1q0u_A           42 ESMVGQSQTGTGKTHAYLL   60 (219)
T ss_dssp             CCEEEECCSSHHHHHHHHH
T ss_pred             CCEEEECCCCChHHHHHHH
Confidence            4699999999999986443

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.83  E-value=0.04  Score=52.54  Aligned_cols=25  Identities=24%  Similarity=0.307  Sum_probs=22.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +.-+.|.||+|+||||+++.+|..+
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4568899999999999999999876

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A

Probab=94.80  E-value=0.26  Score=48.16  Aligned_cols=23  Identities=22%  Similarity=0.219  Sum_probs=17.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      ..++++.+|+|+|||..+-..+-
T Consensus        45 ~~~~lv~a~TGsGKT~~~~~~~~   67 (391)
T 1xti_A           45 GMDVLCQAKSGMGKTAVFVLATL   67 (391)
T ss_dssp             TCCEEEECSSCSSHHHHHHHHHH
T ss_pred             CCcEEEECCCCCcHHHHHHHHHH
Confidence            35699999999999987654443

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=94.79  E-value=0.14  Score=46.38  Aligned_cols=69  Identities=17%  Similarity=0.137  Sum_probs=37.4

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEech-------hhhhhhhcch-----HHHHHHHHHHhHhCCCeEEEE
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP-------ELLNKYIGQS-----EENIRNVFLKARSAAPCVVFF  299 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~-------~l~~~~~g~~-----~~~~~~~~~~a~~~~p~il~i  299 (478)
                      .-.+++||.|+|||+.+-..+...   |.+++.+...       .+.+.. |..     -....+++..+  ....+|+|
T Consensus        20 ~l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~D~Ryg~~i~sr~-G~~~~a~~i~~~~di~~~~--~~~dvViI   96 (234)
T 2orv_A           20 QIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHD-RNTMEALPACLLRDVAQEA--LGVAVIGI   96 (234)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCCC------------CEEEEESSGGGGHHHH--TTCSEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecCCccchHHHHhhc-CCeeEEEecCCHHHHHHHh--ccCCEEEE
Confidence            346788999999998766665544   5566655521       011110 000     00001234443  34579999


Q ss_pred             cCCcccc
Q psy450          300 DELDSLA  306 (478)
Q Consensus       300 Deid~l~  306 (478)
                      ||++-+.
T Consensus        97 DEaQF~~  103 (234)
T 2orv_A           97 DEGQFFP  103 (234)
T ss_dssp             SSGGGCT
T ss_pred             Echhhhh
Confidence            9998874

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A

Probab=94.77  E-value=0.18  Score=49.72  Aligned_cols=53  Identities=17%  Similarity=0.124  Sum_probs=31.4

Q ss_pred             CCCcccccCcHHHHHHHHHHHHh-h--hhhC----CCCCceEEEeCCCCChHHHHHHHHH
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRG-V--NRTS----GLKRSGLLLYGPPGTGKTLIAKAVA  255 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~-~--~~~~----~~~~~~iLl~Gp~GtGKT~la~~la  255 (478)
                      ..+|+++.-.+...+.+...--. +  .+..    -...+++++.+|+|+|||..+-..+
T Consensus        36 ~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~ai~~i~~~~~~lv~a~TGsGKT~~~~~~~   95 (410)
T 2j0s_A           36 TPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISV   95 (410)
T ss_dssp             CCSGGGGCCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHH
T ss_pred             CCCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCCCchHHHHHHH
Confidence            45688887777777666542100 0  0000    0013569999999999997665443

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens}

Probab=94.75  E-value=0.22  Score=47.17  Aligned_cols=50  Identities=18%  Similarity=0.084  Sum_probs=31.8

Q ss_pred             CCCCCcccccCcHHHHHHHHHHH----------HhhhhhCCCCCceEEEeCCCCChHHHHH
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTF----------RGVNRTSGLKRSGLLLYGPPGTGKTLIA  251 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~----------~~~~~~~~~~~~~iLl~Gp~GtGKT~la  251 (478)
                      .+..+|+++.-.+...+.|...-          ..+....+ +++++++.+|+|+|||...
T Consensus        89 ~~~~~f~~l~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~~-~~~~~l~~a~TGsGKT~a~  148 (300)
T 3fmo_B           89 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAE-PPQNLIAQSQSGTGKTAAF  148 (300)
T ss_dssp             CCCCCSGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHTSS-SCCCEEEECCTTSSHHHHH
T ss_pred             CCcCCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHHcC-CCCeEEEECCCCCCccHHH
Confidence            34567888887777777665420          00111111 2467999999999999864

>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=94.73  E-value=0.032  Score=48.26  Aligned_cols=32  Identities=19%  Similarity=0.134  Sum_probs=25.5

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEe
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVK  266 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~  266 (478)
                      .-+.+.|++|+|||+++..++..+   +.++..+.
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik   39 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   39 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEE
Confidence            358899999999999999998876   45555555

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=94.68  E-value=0.023  Score=58.11  Aligned_cols=27  Identities=7%  Similarity=0.030  Sum_probs=24.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      +..|+|.|.+||||||+++++++.++.
T Consensus       395 ~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          395 GFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             CEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             ceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            456899999999999999999999975

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=94.65  E-value=0.11  Score=56.35  Aligned_cols=24  Identities=29%  Similarity=0.375  Sum_probs=20.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      +.-+.|+||.|+||||+.+.++..
T Consensus       607 g~i~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          607 RRMLIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHHH
Confidence            345889999999999999999864

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.63  E-value=0.077  Score=50.64  Aligned_cols=26  Identities=15%  Similarity=0.156  Sum_probs=22.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-+.|.||+|+||||+++.++..++
T Consensus        80 g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           80 PYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            44578999999999999999998775

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=94.60  E-value=0.021  Score=54.42  Aligned_cols=29  Identities=24%  Similarity=0.478  Sum_probs=24.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNF  262 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~  262 (478)
                      ...+.|+||+|+||||+++.|+..+.-.+
T Consensus       126 Ge~vaIvGpsGsGKSTLl~lL~gl~~G~I  154 (305)
T 2v9p_A          126 KNCLAFIGPPNTGKSMLCNSLIHFLGGSV  154 (305)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHHHTCEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhhhcCceE
Confidence            45588999999999999999998874333

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=94.58  E-value=0.12  Score=53.50  Aligned_cols=38  Identities=26%  Similarity=0.282  Sum_probs=30.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEechhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR---MNFLAVKGPELL  271 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~~~~l~  271 (478)
                      +..|+|+|++|+||||+++.+++.++   .++..++...+.
T Consensus       372 ~~~I~l~G~~GsGKSTia~~La~~L~~~G~~~~~ld~D~ir  412 (546)
T 2gks_A          372 GFCVWLTGLPCAGKSTIAEILATMLQARGRKVTLLDGDVVR  412 (546)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECHHHHH
T ss_pred             ceEEEccCCCCCCHHHHHHHHHHHhhhcCCeEEEECchHhh
Confidence            45688999999999999999998774   567777765443

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=94.56  E-value=0.34  Score=44.06  Aligned_cols=52  Identities=15%  Similarity=0.095  Sum_probs=29.1

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHh-h--hhhC----CCCCceEEEeCCCCChHHHHHH
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRG-V--NRTS----GLKRSGLLLYGPPGTGKTLIAK  252 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~-~--~~~~----~~~~~~iLl~Gp~GtGKT~la~  252 (478)
                      .|..+|+++.-.+.+.+.+.+.--. +  .+..    -...+.+++.+|+|+|||...-
T Consensus        26 ~~~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~g~~~l~~apTGsGKT~~~~   84 (242)
T 3fe2_A           26 KPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYL   84 (242)
T ss_dssp             CCCSSTTTTTCCHHHHHHHHTTTCCSCCHHHHHHHHHHHHTCCEEEEECTTSCHHHHHH
T ss_pred             CccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCcCHHHHHHH
Confidence            3456677776666665555431000 0  0000    0013569999999999998743

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.55  E-value=0.013  Score=53.45  Aligned_cols=24  Identities=33%  Similarity=0.465  Sum_probs=15.3

Q ss_pred             ceEEEeCCCCChHHHHHHHHH-HHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVA-TEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la-~~~  258 (478)
                      .-+.|.||+|+||||+++.++ ...
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC---
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCC
Confidence            457899999999999999999 765

>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=94.54  E-value=0.025  Score=53.99  Aligned_cols=25  Identities=24%  Similarity=0.271  Sum_probs=22.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +.-+.|.||+|+||||+++.++..+
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH
Confidence            5568899999999999999999876

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=94.52  E-value=0.1  Score=53.05  Aligned_cols=37  Identities=19%  Similarity=0.247  Sum_probs=28.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR---MNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~~~~l  270 (478)
                      +..|++.|.||+||||+++.+++.++   .+...++..++
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~~~~~t~~~~~d~~   78 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQY   78 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhccCCCceEEecchh
Confidence            45689999999999999999998874   34455554333

>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 3.19A {Homo sapiens}

Probab=94.49  E-value=0.27  Score=49.76  Aligned_cols=49  Identities=18%  Similarity=0.093  Sum_probs=30.3

Q ss_pred             CCCCcccccCcHHHHHHHHHHH----------HhhhhhCCCCCceEEEeCCCCChHHHHH
Q psy450          202 PNVSWEDIGGLSKLKAEILSTF----------RGVNRTSGLKRSGLLLYGPPGTGKTLIA  251 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~----------~~~~~~~~~~~~~iLl~Gp~GtGKT~la  251 (478)
                      +..+|+++.-.+...+.|...-          ..+....+ .++.+++.||+|+|||..+
T Consensus        90 ~~~~f~~~~l~~~l~~~l~~~g~~~p~~~Q~~ai~~il~~-~~~~~l~~a~TGsGKT~~~  148 (479)
T 3fmp_B           90 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAE-PPQNLIAQSQSGTGKTAAF  148 (479)
T ss_dssp             CCCCSGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHTSB-SCCEEEEECCSSSSHHHHH
T ss_pred             CcCCHHHcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHHcC-CCCcEEEEcCCCCchhHHH
Confidence            3457888877777666664310          00000011 2467999999999999874

>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=94.47  E-value=0.092  Score=52.42  Aligned_cols=70  Identities=30%  Similarity=0.258  Sum_probs=43.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhh-------hhh---h---------cch-HHHHHHHHHHhH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELL-------NKY---I---------GQS-EENIRNVFLKAR  290 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~-------~~~---~---------g~~-~~~~~~~~~~a~  290 (478)
                      +..+.+.|++|+||||++..+|..+   +..+..+++....       ..+   .         +.. .......+..++
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D~~r~aa~~qL~~~~~~~gv~v~~~~~~~~p~~i~~~~l~~~~  177 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKAR  177 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeeccccCchhHHHHHHhcccCCccEEecCCCCCHHHHHHHHHHHHH
Confidence            5568889999999999999999876   4566666542110       000   0         011 222355666665


Q ss_pred             hCCCeEEEEcCCc
Q psy450          291 SAAPCVVFFDELD  303 (478)
Q Consensus       291 ~~~p~il~iDeid  303 (478)
                      .....+++||=.-
T Consensus       178 ~~~~DvVIIDTaG  190 (425)
T 2ffh_A          178 LEARDLILVDTAG  190 (425)
T ss_dssp             HTTCSEEEEECCC
T ss_pred             HCCCCEEEEcCCC
Confidence            4556799998643

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=94.46  E-value=0.031  Score=52.97  Aligned_cols=33  Identities=12%  Similarity=0.124  Sum_probs=25.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~  266 (478)
                      ..-++|.||||+|||++++.++..+    |.++++++
T Consensus        35 G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~   71 (296)
T 1cr0_A           35 GEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM   71 (296)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence            4458899999999999999998765    44566654

>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=94.41  E-value=0.039  Score=55.57  Aligned_cols=25  Identities=24%  Similarity=0.478  Sum_probs=21.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...++|+||+|+|||++++.++...
T Consensus       151 Gq~~~i~G~sGvGKTtL~~~l~~~~  175 (473)
T 1sky_E          151 GGKIGLFGGAGVGKTVLIQELIHNI  175 (473)
T ss_dssp             TCEEEEECCSSSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCccHHHHHHHhhh
Confidence            3458999999999999999887654

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=94.40  E-value=0.032  Score=50.01  Aligned_cols=29  Identities=28%  Similarity=0.357  Sum_probs=25.2

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      .|-|+|..||||||+++.+++ +|.+++..
T Consensus        11 ~iglTGgigsGKStv~~~l~~-~g~~vida   39 (210)
T 4i1u_A           11 AIGLTGGIGSGKTTVADLFAA-RGASLVDT   39 (210)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH-TTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcEEEC
Confidence            488999999999999999987 88877543

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.38  E-value=0.059  Score=52.58  Aligned_cols=25  Identities=24%  Similarity=0.307  Sum_probs=22.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +.-+.|.||+|+||||+++.+|..+
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhc
Confidence            4568899999999999999999876

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.36  E-value=0.028  Score=51.59  Aligned_cols=26  Identities=19%  Similarity=0.227  Sum_probs=23.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-|.+.|++|+||||+++.+++.++
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            44588999999999999999999984

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*

Probab=94.34  E-value=0.38  Score=46.82  Aligned_cols=21  Identities=24%  Similarity=0.297  Sum_probs=17.2

Q ss_pred             CceEEEeCCCCChHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAV  254 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~l  254 (478)
                      ++++++.+|+|+|||..+-..
T Consensus        44 ~~~~lv~a~TGsGKT~~~~~~   64 (395)
T 3pey_A           44 PRNMIAQSQSGTGKTAAFSLT   64 (395)
T ss_dssp             CCCEEEECCTTSCHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHH
Confidence            367999999999999865544

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.33  E-value=0.051  Score=57.01  Aligned_cols=25  Identities=32%  Similarity=0.302  Sum_probs=21.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ..-+-|.||+|+||||+++.++..+
T Consensus       103 Gei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          103 GQVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            3457899999999999999998754

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=94.31  E-value=0.027  Score=49.01  Aligned_cols=25  Identities=24%  Similarity=0.262  Sum_probs=22.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .-.+|+||.|+|||+++++|...++
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~l~   51 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFVLG   51 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHc
Confidence            3468999999999999999988775

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=94.30  E-value=0.026  Score=49.11  Aligned_cols=24  Identities=29%  Similarity=0.260  Sum_probs=21.1

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.+.|++|+||||+++.+...+
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhc
Confidence            458899999999999999998765

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.29  E-value=0.012  Score=54.87  Aligned_cols=26  Identities=15%  Similarity=0.299  Sum_probs=23.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +.-|.|.|++|+||||+++.+++.++
T Consensus        24 ~~~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           24 IKKISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            55688999999999999999999983

>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=94.25  E-value=0.018  Score=52.72  Aligned_cols=25  Identities=20%  Similarity=0.416  Sum_probs=21.5

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .-+.|.||+|+||||+++.++....
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~Gl~~   56 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGCLDK   56 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCC
Confidence            3478999999999999999987654

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.23  E-value=0.023  Score=52.29  Aligned_cols=23  Identities=30%  Similarity=0.528  Sum_probs=20.6

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -+.|.||+|+||||++++++...
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999999765

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.14  E-value=0.019  Score=52.29  Aligned_cols=25  Identities=16%  Similarity=0.206  Sum_probs=21.3

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .-+.|.||+|+||||++++++....
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~Gl~~   55 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGLLDA   55 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3477999999999999999987653

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=94.13  E-value=0.034  Score=58.77  Aligned_cols=38  Identities=26%  Similarity=0.413  Sum_probs=26.8

Q ss_pred             cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh
Q psy450          212 LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       212 ~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .+.+++.+...+.         ....+++||||||||+++..+...+
T Consensus       182 n~~Q~~av~~~l~---------~~~~li~GppGTGKT~~~~~~i~~l  219 (624)
T 2gk6_A          182 NHSQVYAVKTVLQ---------RPLSLIQGPPGTGKTVTSATIVYHL  219 (624)
T ss_dssp             CHHHHHHHHHHHT---------CSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhc---------CCCeEEECCCCCCHHHHHHHHHHHH
Confidence            4666666665442         2347899999999999887776543

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.09  E-value=0.049  Score=49.06  Aligned_cols=33  Identities=21%  Similarity=0.251  Sum_probs=25.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~  266 (478)
                      +.-|.|.|++|+||||+++.+++.+   +.+++...
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~v~~~~   41 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRERGIEVQLTR   41 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHcCCCccccc
Confidence            4457889999999999999999887   45555443

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.07  E-value=0.026  Score=58.43  Aligned_cols=38  Identities=21%  Similarity=0.286  Sum_probs=30.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC----CcEEEEechhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR----MNFLAVKGPELL  271 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~----~~~~~v~~~~l~  271 (478)
                      +..+.|.|++|+||||++++|+..++    ..+..++...+.
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~L~~~~G~~i~~lDgD~~~  410 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAARLMEMGGRCVTLLDGDIVR  410 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHHHHTTCSSCEEEESSHHHH
T ss_pred             ceEEEEECCCCChHHHHHHHHHHhhcccCCceEEEECCcHHH
Confidence            45688999999999999999999885    345557776554

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.03  E-value=0.02  Score=51.42  Aligned_cols=23  Identities=39%  Similarity=0.579  Sum_probs=20.3

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .-+.|.||+|+||||++++++..
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            34789999999999999999865

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=94.03  E-value=0.15  Score=44.96  Aligned_cols=18  Identities=28%  Similarity=0.254  Sum_probs=15.3

Q ss_pred             ceEEEeCCCCChHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAK  252 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~  252 (478)
                      +++++.+|+|+|||..+-
T Consensus        41 ~~~lv~apTGsGKT~~~~   58 (206)
T 1vec_A           41 RDILARAKNGTGKSGAYL   58 (206)
T ss_dssp             CCEEEECCSSSTTHHHHH
T ss_pred             CCEEEECCCCCchHHHHH
Confidence            569999999999997554

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=94.02  E-value=0.022  Score=52.29  Aligned_cols=25  Identities=24%  Similarity=0.333  Sum_probs=21.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ..-+.|.||+|+||||+++.++...
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            3457899999999999999998754

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19

Probab=94.02  E-value=0.21  Score=49.94  Aligned_cols=36  Identities=33%  Similarity=0.364  Sum_probs=26.8

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh----CCcEEEEech-hhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKGP-ELL  271 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~~-~l~  271 (478)
                      ++++.+|+|+|||..+-.++...    +.+++.+.+. .+.
T Consensus        25 ~~ll~~~tG~GKT~~~~~~~~~~~~~~~~~~liv~P~~~L~   65 (494)
T 1wp9_A           25 NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTKPLV   65 (494)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECSSHHHH
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHhcCCCeEEEEECCHHHH
Confidence            69999999999999888776554    5566666553 443

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.96  E-value=0.092  Score=50.84  Aligned_cols=25  Identities=24%  Similarity=0.333  Sum_probs=21.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ..-+.|.||||+||||++++++..+
T Consensus        55 g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           55 AIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhh
Confidence            4457899999999999999998765

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=93.95  E-value=0.021  Score=49.58  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=21.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhC
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .+.|.|++|+||||+++.++..+.
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~~   27 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPILR   27 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhh
Confidence            478999999999999999998763

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=93.95  E-value=0.054  Score=48.19  Aligned_cols=65  Identities=11%  Similarity=0.048  Sum_probs=45.0

Q ss_pred             hcCCCeEEEecccccccch-h---hHhhhccccccccccccchhhhccCCCcEEEEe-----eCHhHHhccccEEEeCCC
Q psy450           42 KYNLDIFKYDEVNYLCNVK-Y---VYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-----IRKQIQKLFLKTINVLPL  112 (478)
Q Consensus        42 ~~~p~ilfiDe~d~i~~~r-~---~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-----ld~al~rRf~~~i~~~~P  112 (478)
                      ....+||+|||++.+.+.+ .   ...+++.+..           .....-.|++++     +|.+++.|++..+++..|
T Consensus        85 ~~~~~vliIDEAq~l~~~~~~~~e~~rll~~l~~-----------~r~~~~~iil~tq~~~~l~~~lr~ri~~~~~l~~~  153 (199)
T 2r2a_A           85 ENIGSIVIVDEAQDVWPARSAGSKIPENVQWLNT-----------HRHQGIDIFVLTQGPKLLDQNLRTLVRKHYHIASN  153 (199)
T ss_dssp             GGTTCEEEETTGGGTSBCCCTTCCCCHHHHGGGG-----------TTTTTCEEEEEESCGGGBCHHHHTTEEEEEEEEEC
T ss_pred             ccCceEEEEEChhhhccCccccchhHHHHHHHHh-----------cCcCCeEEEEECCCHHHHhHHHHHHhheEEEEcCc
Confidence            3568999999999997654 1   1123333332           223345688888     999999999999999987


Q ss_pred             CHHHH
Q psy450          113 TEPER  117 (478)
Q Consensus       113 ~~~~r  117 (478)
                      ....+
T Consensus       154 ~~~~~  158 (199)
T 2r2a_A          154 KMGMR  158 (199)
T ss_dssp             SSCCE
T ss_pred             ccCcc
Confidence            65544

>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=93.94  E-value=0.024  Score=51.14  Aligned_cols=25  Identities=32%  Similarity=0.495  Sum_probs=21.4

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .-+.|.||+|+||||++++++....
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl~~   60 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTYLK   60 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3478999999999999999987653

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=93.94  E-value=0.024  Score=55.27  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=20.5

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -+.|.||+||||||++++|+...
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47799999999999999999754

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.84  E-value=0.031  Score=52.36  Aligned_cols=23  Identities=17%  Similarity=0.443  Sum_probs=20.9

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .+.+.||+|+||||+.++++...
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            47899999999999999999866

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.82  E-value=0.025  Score=52.72  Aligned_cols=25  Identities=16%  Similarity=0.348  Sum_probs=21.4

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .-+.|.||+|+||||++++++....
T Consensus        33 e~~~liG~nGsGKSTLlk~l~Gl~~   57 (262)
T 1b0u_A           33 DVISIIGSSGSGKSTFLRCINFLEK   57 (262)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3477999999999999999987653

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A

Probab=93.81  E-value=0.12  Score=55.21  Aligned_cols=34  Identities=35%  Similarity=0.347  Sum_probs=23.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHH-HHh--CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVA-TEC--RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la-~~~--~~~~~~v~~  267 (478)
                      ..++++.||+|+|||+.+-... +.+  +...+++.+
T Consensus        40 ~~~~lv~apTGsGKT~~~~l~il~~~~~~~~~l~i~P   76 (702)
T 2p6r_A           40 GKNLLLAMPTAAGKTLLAEMAMVREAIKGGKSLYVVP   76 (702)
T ss_dssp             CSCEEEECSSHHHHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CCcEEEEcCCccHHHHHHHHHHHHHHHhCCcEEEEeC
Confidence            4569999999999999874333 222  445555543

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=93.80  E-value=0.19  Score=53.99  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=20.1

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      ..+.|+||.|+||||+.+.++..
T Consensus       577 ~i~~I~GpNGsGKSTlLr~iagl  599 (765)
T 1ewq_A          577 ELVLITGPNMAGKSTFLRQTALI  599 (765)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHHhh
Confidence            45789999999999999999864

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=93.76  E-value=0.061  Score=48.48  Aligned_cols=32  Identities=22%  Similarity=0.172  Sum_probs=26.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      +.-|.|.|++|+||||.++.+++.++.+...+
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l~~~~~~~   36 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKLQPNCKLL   36 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHHCSSEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcccceEE
Confidence            44588999999999999999999998754333

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=93.74  E-value=0.19  Score=50.28  Aligned_cols=34  Identities=24%  Similarity=0.247  Sum_probs=22.1

Q ss_pred             CceEEEeCCCCChHHHHH-HHHHH---HhCCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIA-KAVAT---ECRMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la-~~la~---~~~~~~~~v~~  267 (478)
                      .+.+++.||+|+|||..+ ..+.+   .-+...+.+.+
T Consensus         2 g~~~lv~a~TGsGKT~~~l~~~l~~~~~~g~~~lvl~P   39 (431)
T 2v6i_A            2 RELTVLDLHPGAGKTRRVLPQLVREAVKKRLRTVILAP   39 (431)
T ss_dssp             CCEEEEECCTTSCTTTTHHHHHHHHHHHTTCCEEEEES
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEECc
Confidence            356999999999999975 43332   22444554443

>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=93.73  E-value=0.032  Score=51.65  Aligned_cols=23  Identities=35%  Similarity=0.575  Sum_probs=20.4

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .-+.|.||+|+||||+++.++..
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            34789999999999999999974

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.71  E-value=0.031  Score=54.49  Aligned_cols=24  Identities=38%  Similarity=0.483  Sum_probs=20.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+||||||++++|+...
T Consensus        42 e~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            347799999999999999999754

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=93.71  E-value=0.53  Score=50.34  Aligned_cols=34  Identities=35%  Similarity=0.360  Sum_probs=23.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHH-HH---hCCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVA-TE---CRMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la-~~---~~~~~~~v~~  267 (478)
                      ..++++.||+|+|||+.+-... +.   -+...+++.+
T Consensus        46 ~~~~lv~apTGsGKT~~~~l~il~~~~~~~~~il~i~P   83 (715)
T 2va8_A           46 GNRLLLTSPTGSGKTLIAEMGIISFLLKNGGKAIYVTP   83 (715)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHHHHHSCSEEEEECS
T ss_pred             CCcEEEEcCCCCcHHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            5679999999999999884433 22   2455555543

>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=93.70  E-value=0.027  Score=52.87  Aligned_cols=24  Identities=17%  Similarity=0.198  Sum_probs=20.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+|+||||++++++...
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            347899999999999999998754

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=93.68  E-value=0.039  Score=54.13  Aligned_cols=27  Identities=15%  Similarity=0.341  Sum_probs=23.6

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCc
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMN  261 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~  261 (478)
                      ..+.|.||+|+||||+++.|+..+...
T Consensus       171 ~k~~IvG~nGsGKSTLlk~L~gl~~~~  197 (365)
T 1lw7_A          171 KTVAILGGESSGKSVLVNKLAAVFNTT  197 (365)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHTTCE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            458899999999999999999987654

>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=93.67  E-value=0.033  Score=52.09  Aligned_cols=23  Identities=26%  Similarity=0.514  Sum_probs=20.5

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .-+.|.||+|+||||+++.++..
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            34789999999999999999975

>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=93.67  E-value=0.028  Score=51.76  Aligned_cols=25  Identities=28%  Similarity=0.365  Sum_probs=21.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...+.|.||+|+||||++++++...
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3457899999999999999998754

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.67  E-value=0.047  Score=49.65  Aligned_cols=25  Identities=20%  Similarity=0.138  Sum_probs=19.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +.-|.|.|++|+||||+++.+++.+
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            3457889999999999999999887

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.66  E-value=0.032  Score=54.52  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=20.5

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -+.|.||+||||||++++|+...
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47799999999999999999754

>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=93.66  E-value=0.028  Score=52.29  Aligned_cols=24  Identities=25%  Similarity=0.466  Sum_probs=20.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+|+||||++++++...
T Consensus        34 e~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            347799999999999999998755

>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=93.66  E-value=0.028  Score=51.67  Aligned_cols=25  Identities=36%  Similarity=0.410  Sum_probs=21.4

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .-+.|.||+|+||||+++.++....
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~Gl~~   57 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3478999999999999999987653

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A

Probab=93.65  E-value=0.74  Score=45.03  Aligned_cols=21  Identities=29%  Similarity=0.257  Sum_probs=16.8

Q ss_pred             ceEEEeCCCCChHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVA  255 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la  255 (478)
                      +++++.+|+|+|||..+-..+
T Consensus        59 ~~~li~a~TGsGKT~~~~~~~   79 (400)
T 1s2m_A           59 RDILARAKNGTGKTAAFVIPT   79 (400)
T ss_dssp             CCEEEECCTTSCHHHHHHHHH
T ss_pred             CCEEEECCCCcHHHHHHHHHH
Confidence            469999999999998655443

>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=93.65  E-value=0.028  Score=51.92  Aligned_cols=24  Identities=21%  Similarity=0.347  Sum_probs=21.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+|+||||+++.++...
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            347899999999999999998765

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=93.63  E-value=0.73  Score=47.13  Aligned_cols=34  Identities=15%  Similarity=0.345  Sum_probs=24.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh--------CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC--------RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~--------~~~~~~v~~  267 (478)
                      .+++++.+|+|+|||..+-..+...        +..++.+.+
T Consensus        19 ~~~~l~~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~lil~P   60 (555)
T 3tbk_A           19 GKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFAN   60 (555)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECS
T ss_pred             CCCEEEEeCCCChHHHHHHHHHHHHHHhcccCCCCEEEEEeC
Confidence            3469999999999998866665443        455555544

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=93.62  E-value=0.033  Score=54.42  Aligned_cols=24  Identities=33%  Similarity=0.371  Sum_probs=20.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+||||||++++++...
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           30 EFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEEcCCCchHHHHHHHHHCCC
Confidence            347799999999999999999754

>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=93.59  E-value=0.029  Score=52.30  Aligned_cols=25  Identities=20%  Similarity=0.420  Sum_probs=21.4

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .-+.|.||+|+||||+++.++....
T Consensus        51 ei~~liG~NGsGKSTLlk~l~Gl~~   75 (263)
T 2olj_A           51 EVVVVIGPSGSGKSTFLRCLNLLED   75 (263)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEEcCCCCcHHHHHHHHHcCCC
Confidence            3478999999999999999987653

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=93.58  E-value=0.034  Score=54.59  Aligned_cols=24  Identities=38%  Similarity=0.491  Sum_probs=20.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+||||||++++|+...
T Consensus        38 e~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           38 EFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHHcCC
Confidence            347799999999999999999754

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=93.58  E-value=0.1  Score=47.01  Aligned_cols=19  Identities=37%  Similarity=0.431  Sum_probs=15.7

Q ss_pred             CceEEEeCCCCChHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAK  252 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~  252 (478)
                      .+++++.+|+|+|||..+-
T Consensus        57 ~~~~l~~apTGsGKT~~~~   75 (228)
T 3iuy_A           57 GIDLIVVAQTGTGKTLSYL   75 (228)
T ss_dssp             TCCEEEECCTTSCHHHHHH
T ss_pred             CCCEEEECCCCChHHHHHH
Confidence            4569999999999998644

>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=93.53  E-value=0.034  Score=50.67  Aligned_cols=24  Identities=29%  Similarity=0.357  Sum_probs=21.2

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+|+||||+++.++..+
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            357899999999999999998765

>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=93.52  E-value=0.029  Score=54.57  Aligned_cols=24  Identities=33%  Similarity=0.551  Sum_probs=20.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+||||||+++.|+...
T Consensus        27 e~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCccHHHHHHHHHcCC
Confidence            347799999999999999999754

>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=93.52  E-value=0.04  Score=48.64  Aligned_cols=22  Identities=23%  Similarity=0.448  Sum_probs=20.1

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .+.+.|++|+|||++++.++..
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            4899999999999999999875

>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=93.51  E-value=0.031  Score=52.28  Aligned_cols=24  Identities=21%  Similarity=0.419  Sum_probs=20.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+|+||||++++++...
T Consensus        38 e~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC
Confidence            347899999999999999998755

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=93.50  E-value=0.031  Score=51.65  Aligned_cols=25  Identities=32%  Similarity=0.428  Sum_probs=21.6

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      ..+.|.||+|+||||+++.++....
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl~~   51 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGMTS   51 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCC
Confidence            3478999999999999999987654

>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=93.49  E-value=0.037  Score=48.58  Aligned_cols=23  Identities=22%  Similarity=0.385  Sum_probs=20.6

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .+.+.|++|+|||++++.++...
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            48899999999999999998754

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=93.48  E-value=0.34  Score=46.80  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=21.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...+.+.|+||+||||++..++..+
T Consensus        56 ~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           56 TLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4568899999999999999998765

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=93.47  E-value=0.036  Score=54.47  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=20.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+||||||++++|+...
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCcHHHHHHHHHHcCC
Confidence            347799999999999999999755

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.42  E-value=0.032  Score=52.31  Aligned_cols=24  Identities=29%  Similarity=0.436  Sum_probs=21.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+|+|||||++.++...
T Consensus        46 e~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           46 KVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            347899999999999999998755

>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=93.42  E-value=0.033  Score=51.75  Aligned_cols=24  Identities=33%  Similarity=0.432  Sum_probs=21.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+|+||||++++++...
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            347899999999999999998755

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.39  E-value=0.055  Score=49.03  Aligned_cols=27  Identities=22%  Similarity=0.159  Sum_probs=23.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      +.-|.|.|++|+||||+++.+++.++.
T Consensus        21 ~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           21 SMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            555888999999999999999987654

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=93.38  E-value=0.033  Score=52.43  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=21.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+|+||||+++.++...
T Consensus        48 e~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            347899999999999999998765

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=93.37  E-value=0.055  Score=58.70  Aligned_cols=38  Identities=26%  Similarity=0.413  Sum_probs=26.7

Q ss_pred             cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh
Q psy450          212 LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       212 ~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .+.+++.+...+.         ....+++||||||||+++..+...+
T Consensus       358 n~~Q~~Av~~~l~---------~~~~lI~GppGTGKT~ti~~~i~~l  395 (800)
T 2wjy_A          358 NHSQVYAVKTVLQ---------RPLSLIQGPPGTGKTVTSATIVYHL  395 (800)
T ss_dssp             CHHHHHHHHHHHT---------SSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhcc---------CCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            4666666665442         2347899999999999877776543

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.36  E-value=0.037  Score=51.54  Aligned_cols=25  Identities=32%  Similarity=0.357  Sum_probs=21.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +..+.|.||+|+||||+++.++...
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccC
Confidence            3458899999999999999998754

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=93.33  E-value=0.076  Score=47.57  Aligned_cols=26  Identities=23%  Similarity=0.378  Sum_probs=22.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      ...+++.|++|+|||+++..++..+.
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            45689999999999999999998764

>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=93.32  E-value=0.14  Score=58.78  Aligned_cols=26  Identities=23%  Similarity=0.310  Sum_probs=22.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +..+.++||+|+||||+++.+...+.
T Consensus       444 G~~vaivG~sGsGKSTll~ll~~~~~  469 (1321)
T 4f4c_A          444 GQTVALVGSSGCGKSTIISLLLRYYD  469 (1321)
T ss_dssp             TCEEEEEECSSSCHHHHHHHHTTSSC
T ss_pred             CcEEEEEecCCCcHHHHHHHhccccc
Confidence            34588999999999999999988763

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19

Probab=93.31  E-value=0.39  Score=51.81  Aligned_cols=34  Identities=24%  Similarity=0.267  Sum_probs=24.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      +.++++.||+|+|||..+-..+-..   +...+.+.+
T Consensus       389 ~~~~Ll~a~TGSGKTlvall~il~~l~~g~qvlvlaP  425 (780)
T 1gm5_A          389 PMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVP  425 (780)
T ss_dssp             CCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECS
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            4579999999999999776554332   556665554

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=93.29  E-value=0.12  Score=47.93  Aligned_cols=19  Identities=37%  Similarity=0.403  Sum_probs=15.7

Q ss_pred             ceEEEeCCCCChHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKA  253 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~  253 (478)
                      +.+++.+|+|+|||..+-.
T Consensus        92 ~~~lv~a~TGsGKT~~~~l  110 (262)
T 3ly5_A           92 RDLLAAAKTGSGKTLAFLI  110 (262)
T ss_dssp             CCCEECCCTTSCHHHHHHH
T ss_pred             CcEEEEccCCCCchHHHHH
Confidence            4599999999999986543

>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=93.28  E-value=0.11  Score=49.55  Aligned_cols=77  Identities=10%  Similarity=0.051  Sum_probs=56.6

Q ss_pred             hhhhHHHHhhhhc----CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------eCHhHH
Q psy450           31 HLNDIVKINLKKY----NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------IRKQIQ  100 (478)
Q Consensus        31 ~~~~if~~~a~~~----~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------ld~al~  100 (478)
                      .+|.+.+ .+...    ..-|+||||+|.+-.. ..|.+|..|+.             .+...++|++      +.|+++
T Consensus        66 ~ir~li~-~~~~~p~~~~~kvviIdead~lt~~-a~naLLk~LEe-------------p~~~t~fIl~t~~~~kl~~tI~  130 (305)
T 2gno_A           66 DIRTIKD-FLNYSPELYTRKYVIVHDCERMTQQ-AANAFLKALEE-------------PPEYAVIVLNTRRWHYLLPTIK  130 (305)
T ss_dssp             HHHHHHH-HHTSCCSSSSSEEEEETTGGGBCHH-HHHHTHHHHHS-------------CCTTEEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHH-HHhhccccCCceEEEeccHHHhCHH-HHHHHHHHHhC-------------CCCCeEEEEEECChHhChHHHH
Confidence            5788887 66532    2369999999998544 36778877873             1223344444      899999


Q ss_pred             hccccEEEeCCCCHHHHHHHHHHHH
Q psy450          101 KLFLKTINVLPLTEPERRLLIQYQL  125 (478)
Q Consensus       101 rRf~~~i~~~~P~~~~r~~il~~~~  125 (478)
                      +|   .++|+.|+.++..+.++..+
T Consensus       131 SR---~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          131 SR---VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             TT---SEEEECCCCHHHHHHHHHHH
T ss_pred             ce---eEeCCCCCHHHHHHHHHHHh
Confidence            99   89999999999888887766

>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA dependent ATPase, mRNA export, nucleocytoplasmic transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens} PDB: 3ews_A* 3g0h_A* 3fhc_B

Probab=93.28  E-value=0.6  Score=45.75  Aligned_cols=51  Identities=18%  Similarity=0.076  Sum_probs=31.5

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHH-hh---------hhhCCCCCceEEEeCCCCChHHHHHH
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFR-GV---------NRTSGLKRSGLLLYGPPGTGKTLIAK  252 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~-~~---------~~~~~~~~~~iLl~Gp~GtGKT~la~  252 (478)
                      .+..+|+++.-.+...+.+.+.-. .+         ....+ .+..+++.+|+|+|||..+-
T Consensus        22 ~~~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~-~~~~~lv~apTGsGKT~~~~   82 (412)
T 3fht_A           22 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAE-PPQNLIAQSQSGTGKTAAFV   82 (412)
T ss_dssp             CCSSCTGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHHSS-SCCCEEEECCTTSCHHHHHH
T ss_pred             cccCCHhhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcC-CCCeEEEECCCCchHHHHHH
Confidence            445668887777777666654210 00         00011 24679999999999998753

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.26  E-value=0.035  Score=51.87  Aligned_cols=24  Identities=33%  Similarity=0.457  Sum_probs=20.8

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+|+||||+++.++...
T Consensus        34 e~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            347799999999999999998754

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.23  E-value=0.037  Score=51.33  Aligned_cols=24  Identities=21%  Similarity=0.260  Sum_probs=21.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+|+||||+++.++...
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            347899999999999999998765

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.23  E-value=0.052  Score=45.58  Aligned_cols=22  Identities=18%  Similarity=0.451  Sum_probs=19.8

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .+++.|++|+|||++++.+...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999764

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens}

Probab=93.21  E-value=0.53  Score=46.22  Aligned_cols=20  Identities=25%  Similarity=0.263  Sum_probs=16.2

Q ss_pred             CceEEEeCCCCChHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKA  253 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~  253 (478)
                      .+.+++.+|+|+|||..+-.
T Consensus        77 ~~~~lv~a~TGsGKT~~~~~   96 (414)
T 3eiq_A           77 GYDVIAQAQSGTGKTATFAI   96 (414)
T ss_dssp             TCCEEECCCSCSSSHHHHHH
T ss_pred             CCCEEEECCCCCcccHHHHH
Confidence            34599999999999987443

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=93.18  E-value=0.036  Score=54.33  Aligned_cols=70  Identities=19%  Similarity=0.310  Sum_probs=41.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC--CcEEEEech-hhhh-----h--hhc-c-------hHHHHHHHHHHhHhCCCe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR--MNFLAVKGP-ELLN-----K--YIG-Q-------SEENIRNVFLKARSAAPC  295 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~--~~~~~v~~~-~l~~-----~--~~g-~-------~~~~~~~~~~~a~~~~p~  295 (478)
                      ...+++.||+|+||||++++++....  ...+.++.. ++..     .  +.. +       ....++..+..+....|.
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~~~~~~~g~I~ie~~~e~~~~~~~~~v~~v~~q~~~~~~~~~~t~~~~i~~~l~~~pd  254 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQEIPFDQRLITIEDVPELFLPDHPNHVHLFYPSEAKEEENAPVTAATLLRSCLRMKPT  254 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHTTSCTTSCEEEEESSSCCCCTTCSSEEEEECC----------CCHHHHHHHHTTSCCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCCCCceEEEECCccccCccccCCEEEEeecCccccccccccCHHHHHHHHHhcCCC
Confidence            34599999999999999999998764  234444421 1100     0  010 0       111244555566666778


Q ss_pred             EEEEcCCc
Q psy450          296 VVFFDELD  303 (478)
Q Consensus       296 il~iDeid  303 (478)
                      .++++|+.
T Consensus       255 ~~l~~e~r  262 (361)
T 2gza_A          255 RILLAELR  262 (361)
T ss_dssp             EEEESCCC
T ss_pred             EEEEcCch
Confidence            88888864

>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=93.17  E-value=0.087  Score=49.17  Aligned_cols=23  Identities=35%  Similarity=0.445  Sum_probs=20.3

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      ..+.|.|+||+|||++.+++...
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            45899999999999999999753

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*

Probab=93.16  E-value=0.58  Score=48.00  Aligned_cols=33  Identities=18%  Similarity=0.429  Sum_probs=23.6

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh--------CCcEEEEec
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC--------RMNFLAVKG  267 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~--------~~~~~~v~~  267 (478)
                      .++++.+|+|+|||..+-..+...        +..++.+.+
T Consensus        23 ~~~l~~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~lil~P   63 (556)
T 4a2p_A           23 KNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLAT   63 (556)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECS
T ss_pred             CCEEEEcCCCChHHHHHHHHHHHHHHhCcccCCCeEEEEeC
Confidence            459999999999998876655443        455555544

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.09  E-value=0.039  Score=51.42  Aligned_cols=23  Identities=30%  Similarity=0.641  Sum_probs=20.5

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .+.|.||+|+||||+++.++...
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998765

>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=93.05  E-value=0.031  Score=54.54  Aligned_cols=24  Identities=29%  Similarity=0.459  Sum_probs=20.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||+||||||++++|+...
T Consensus        32 e~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           32 ERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            347799999999999999999754

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=93.00  E-value=0.056  Score=49.47  Aligned_cols=25  Identities=20%  Similarity=0.292  Sum_probs=22.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +.-|.|.|++|+||||+++.+++.+
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4558899999999999999999877

>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=92.98  E-value=0.058  Score=45.60  Aligned_cols=23  Identities=13%  Similarity=0.255  Sum_probs=20.5

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      -.+++.|++|+|||++++.+...
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            35899999999999999999864

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=92.95  E-value=0.29  Score=52.46  Aligned_cols=34  Identities=26%  Similarity=0.271  Sum_probs=23.0

Q ss_pred             CceEEEeCCCCChHHHHHH-HHHHH---hCCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAK-AVATE---CRMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~-~la~~---~~~~~~~v~~  267 (478)
                      ..++++.||+|+|||+.+. .+.+.   -+...+++.+
T Consensus        39 ~~~~lv~apTGsGKT~~~~l~il~~~~~~~~~~l~i~P   76 (720)
T 2zj8_A           39 GKNALISIPTASGKTLIAEIAMVHRILTQGGKAVYIVP   76 (720)
T ss_dssp             TCEEEEECCGGGCHHHHHHHHHHHHHHHHCSEEEEECS
T ss_pred             CCcEEEEcCCccHHHHHHHHHHHHHHHhCCCEEEEEcC
Confidence            5679999999999999873 33222   2455555543

>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=92.94  E-value=0.045  Score=47.61  Aligned_cols=21  Identities=29%  Similarity=0.578  Sum_probs=19.2

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .+++.|++|+|||++++.++.
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            389999999999999999975

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=92.92  E-value=0.044  Score=54.13  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=20.3

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .-+.|.||+||||||++++|+..
T Consensus        48 e~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           48 QRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCChHHHHHHHHhCC
Confidence            34789999999999999999864

>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=92.91  E-value=0.054  Score=46.13  Aligned_cols=21  Identities=33%  Similarity=0.540  Sum_probs=19.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .+.+.|++|+|||++.+.+..
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999975

>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=92.91  E-value=0.061  Score=48.06  Aligned_cols=25  Identities=24%  Similarity=0.571  Sum_probs=22.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...+++.|++|+|||+++..+....
T Consensus        12 ~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           12 QPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4569999999999999999998754

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=92.88  E-value=0.27  Score=45.10  Aligned_cols=19  Identities=21%  Similarity=0.225  Sum_probs=15.8

Q ss_pred             CceEEEeCCCCChHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAK  252 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~  252 (478)
                      .+.+++.+|+|+|||..+-
T Consensus        80 ~~~~lv~a~TGsGKT~~~~   98 (249)
T 3ber_A           80 GRDIIGLAETGSGKTGAFA   98 (249)
T ss_dssp             TCCEEEECCTTSCHHHHHH
T ss_pred             CCCEEEEcCCCCCchhHhH
Confidence            3569999999999998643

>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=92.84  E-value=0.064  Score=45.15  Aligned_cols=23  Identities=22%  Similarity=0.406  Sum_probs=20.2

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      -.+++.|++|+|||+++..+...
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            35899999999999999998764

>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix, antiparallel-coiled-COI domain, ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces cerevisiae}

Probab=92.80  E-value=0.24  Score=55.78  Aligned_cols=34  Identities=15%  Similarity=0.269  Sum_probs=24.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      ...+++.||+|+|||..+...+...   +...+++.+
T Consensus       199 g~dvLV~ApTGSGKTlva~l~i~~~l~~g~rvlvl~P  235 (1108)
T 3l9o_A          199 GESVLVSAHTSAGKTVVAEYAIAQSLKNKQRVIYTSP  235 (1108)
T ss_dssp             TCCEEEECCSSSHHHHHHHHHHHHHHHTTCEEEEEES
T ss_pred             CCCEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEcC
Confidence            4569999999999999876554433   555555544

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}

Probab=92.75  E-value=0.56  Score=42.57  Aligned_cols=18  Identities=44%  Similarity=0.600  Sum_probs=15.2

Q ss_pred             CceEEEeCCCCChHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIA  251 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la  251 (478)
                      .+++++.+|+|+|||..+
T Consensus        66 ~~~~l~~a~TGsGKT~~~   83 (245)
T 3dkp_A           66 GRELLASAPTGSGKTLAF   83 (245)
T ss_dssp             TCCEEEECCTTSCHHHHH
T ss_pred             CCCEEEECCCCCcHHHHH
Confidence            346999999999999864

>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=92.71  E-value=0.13  Score=47.40  Aligned_cols=34  Identities=18%  Similarity=0.202  Sum_probs=27.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh--CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC--RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~--~~~~~~v~~  267 (478)
                      ...+++.|.+|+||||++..++..+  +.++..++.
T Consensus        14 ~~i~~~~GkgGvGKTTl~~~La~~l~~g~~v~vvd~   49 (262)
T 1yrb_A           14 SMIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNL   49 (262)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHTTTSCEEEEEC
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHHCCCeEEEEeC
Confidence            5568889999999999999998776  556666653

>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=92.70  E-value=0.061  Score=45.18  Aligned_cols=22  Identities=23%  Similarity=0.462  Sum_probs=20.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .+++.|++|+|||++++.+...
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            5899999999999999999864

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=92.67  E-value=0.13  Score=46.09  Aligned_cols=25  Identities=24%  Similarity=0.391  Sum_probs=22.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...+++.|++|+|||+++..++...
T Consensus        38 ~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           38 VVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            4558899999999999999998875

>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=92.65  E-value=0.12  Score=51.51  Aligned_cols=37  Identities=14%  Similarity=0.307  Sum_probs=26.1

Q ss_pred             HHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHH
Q psy450          217 AEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       217 ~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      ..+++.+......    +..+.|.||+|+||||+.++++..
T Consensus        56 ~~i~~~L~~~~~~----~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           56 SAISDALKEIDSS----VLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             HHHHHHHHHHHHC----CEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             hhhhhhhhhcccC----CeEEEEECCCCCcHHHHHHHHhCC
Confidence            4444444444322    335789999999999999999873

>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=92.64  E-value=0.069  Score=45.15  Aligned_cols=23  Identities=26%  Similarity=0.393  Sum_probs=20.2

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      -.+++.|++|+|||+++..+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            4 IKLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35899999999999999999764

>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=92.64  E-value=0.069  Score=44.98  Aligned_cols=23  Identities=17%  Similarity=0.413  Sum_probs=20.5

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      ..+++.|++|+|||++++.+...
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45999999999999999999864

>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=92.57  E-value=0.072  Score=45.55  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=20.4

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      ..+++.|++|+|||++++.+...
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45999999999999999999753

>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=92.56  E-value=0.073  Score=45.05  Aligned_cols=24  Identities=25%  Similarity=0.349  Sum_probs=20.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -.+++.|++|+|||++++.+...-
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            358999999999999999998653

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=92.51  E-value=0.077  Score=57.59  Aligned_cols=36  Identities=31%  Similarity=0.487  Sum_probs=24.9

Q ss_pred             cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHH
Q psy450          212 LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       212 ~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .+.+++.+...+.         ....+++||||||||+++..+..
T Consensus       362 n~~Q~~Av~~~l~---------~~~~lI~GppGTGKT~~i~~~i~  397 (802)
T 2xzl_A          362 NSSQSNAVSHVLQ---------RPLSLIQGPPGTGKTVTSATIVY  397 (802)
T ss_dssp             CHHHHHHHHHHTT---------CSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhc---------CCCEEEECCCCCCHHHHHHHHHH
Confidence            4666666655432         22478999999999998766644

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=92.48  E-value=0.068  Score=48.10  Aligned_cols=24  Identities=25%  Similarity=0.336  Sum_probs=21.5

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-|.|.|++|+||||.++.+++.+
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            347889999999999999999877

>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=92.47  E-value=0.068  Score=45.56  Aligned_cols=22  Identities=41%  Similarity=0.614  Sum_probs=19.6

Q ss_pred             ceEEEeCCCCChHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      -.+++.|++|+|||++++.+..
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~   26 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAG   26 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCccHHHHHHHHhc
Confidence            3589999999999999999864

>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=92.43  E-value=0.067  Score=45.99  Aligned_cols=24  Identities=25%  Similarity=0.452  Sum_probs=20.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      ...+.+.|++|+|||++.+.++..
T Consensus         4 ~~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            4 GMKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345899999999999999999864

>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=92.43  E-value=0.076  Score=47.07  Aligned_cols=24  Identities=25%  Similarity=0.418  Sum_probs=20.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      ...|++.|++|+|||+++..+...
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            446999999999999999999753

---

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	478
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	1e-78
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	4e-77
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	4e-62
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	8e-46
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	2e-44
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	3e-25
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	5e-25
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	6e-25
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	4e-16
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	1e-13
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	4e-13
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	4e-10
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	2e-05
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	2e-05
d1g41a_	443	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	2e-05
d1ny5a2	247	c.37.1.20 (A:138-384) Transcriptional activator si	6e-04
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	6e-04
d1r6bx2	268	c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, A	0.003
d1um8a_	364	c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 2	0.004

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

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]

 Score =  243 bits (621), Expect = 1e-78
 Identities = 81/257 (31%), Positives = 129/257 (50%), Gaps = 19/257 (7%)

Query: 201 VPNVSWEDIGGLSKLKAEI-----LSTFRGVNRTSGLKRS-GLLLYGPPGTGKTLIAKAV 254
            P V+++D+ G  + K E+                G +   G+LL GPPG GKT +A+AV
Sbjct: 3   APKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAV 62

Query: 255 ATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRG-QED 313
           A E R+ F+   G + +  ++G     +R++F  A+  APC+VF DE+D++  +RG    
Sbjct: 63  AGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVG 122

Query: 314 QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDR 373
             +   ++ ++QLL EMDG      + ++ ATNR D+LDPA+LRPGR D+ + +    D 
Sbjct: 123 GGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAP-DV 181

Query: 374 ISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQV 433
             +  +L+   R   L++DV L  L    P    GAD+ ++ + A   A R         
Sbjct: 182 KGREQILRIHARGKPLAEDVDLALLAKRTPG-FVGADLENLLNEAALLAAREGRRK---- 236

Query: 434 KSAPVIVTMDDFLGACS 450
                 +TM D   A S
Sbjct: 237 ------ITMKDLEEAAS 247

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

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]

 Score =  239 bits (612), Expect = 4e-77
 Identities = 80/257 (31%), Positives = 136/257 (52%), Gaps = 19/257 (7%)

Query: 199 PSVPNVSWEDIGGLSKLKAEI-----LSTFRGVNRTSGLKRS-GLLLYGPPGTGKTLIAK 252
                 ++ D+ G  + K E+             +  G K   G+L+ GPPGTGKTL+AK
Sbjct: 4   EDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAK 63

Query: 253 AVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE 312
           A+A E ++ F  + G + +  ++G     +R++F +A+ AAPC++F DE+D++  +RG  
Sbjct: 64  AIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAG 123

Query: 313 -DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
                   ++ ++Q+L EMDG   ++ + ++ ATNR D+LDPA+LRPGR D+ + VGL  
Sbjct: 124 LGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLP- 182

Query: 372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAP 431
           D   +  +LK  +R+  L+ D+    +    P   SGAD+ ++ + A   A R       
Sbjct: 183 DVRGREQILKVHMRRVPLAPDIDAAIIARGTPG-FSGADLANLVNEAALFAARGNKR--- 238

Query: 432 QVKSAPVIVTMDDFLGA 448
                  +V+M +F  A
Sbjct: 239 -------VVSMVEFEKA 248

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 265

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]

 Score =  201 bits (511), Expect = 4e-62
 Identities = 121/262 (46%), Positives = 162/262 (61%), Gaps = 16/262 (6%)

Query: 201 VPNVSWEDIGGLSKLKAEILST------FRGVNRTSGLKRS-GLLLYGPPGTGKTLIAKA 253
           VP V+WEDIGGL  +K E+                 G+  S G+L YGPPG GKTL+AKA
Sbjct: 1   VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKA 60

Query: 254 VATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQED 313
           +A EC+ NF+++KGPELL  + G+SE N+R +F KAR AAPCV+FFDELDS+A  RG   
Sbjct: 61  IANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNI 120

Query: 314 QS-SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
               G  DRV++Q+L EMDG+ T ++VFI+GATNR D++DPAILRPGRLD+ +Y+ L ++
Sbjct: 121 GDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE 180

Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSA-- 430
           +     +LKA +RK  ++ DV L+ L        SGAD+  IC  A   AIR  I S   
Sbjct: 181 KSRV-AILKANLRKSPVAKDVDLEFLAKMTN-GFSGADLTEICQRACKLAIRESIESEIR 238

Query: 431 ----PQVKSAPVIVTMDDFLGA 448
                Q   + + V  DD +  
Sbjct: 239 RERERQTNPSAMEVEEDDPVPE 260

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

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]

 Score =  160 bits (405), Expect = 8e-46
 Identities = 30/201 (14%), Positives = 67/201 (33%), Gaps = 10/201 (4%)

Query: 232 LKRSGLLLYGPPGTGKTLIAKAVATEC--RMNFLAVKGPELLNKYIGQSEENIRNVFLKA 289
                +++ G   +GKT +  A+      +  +  V+  E L+ Y       + ++    
Sbjct: 121 YASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAM 180

Query: 290 RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD 349
                 V+  D L ++       + +SG + R    LL+++  +  S+   ++ + N   
Sbjct: 181 LQ--HRVIVIDSLKNVIGAA-GGNTTSGGISRGAFDLLSDIGAMAASRGCVVIASLNPTS 237

Query: 350 L---LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQM 406
               +   +    R + +  V    D   +  VL       +      L +         
Sbjct: 238 NDDKIVELVKEASRSNSTSLVIST-DVDGEWQVLTRTGEGLQRLTHT-LQTSYGEHSVLT 295

Query: 407 SGADIYSICSNAWTRAIRRII 427
                 S    A  +AI+ +I
Sbjct: 296 IHTSKQSGGKQASGKAIQTVI 316

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 258

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]

 Score =  154 bits (390), Expect = 2e-44
 Identities = 98/259 (37%), Positives = 146/259 (56%), Gaps = 18/259 (6%)

Query: 204 VSWEDIGGLSKLKAEILST------FRGVNRTSGLK-RSGLLLYGPPGTGKTLIAKAVAT 256
           V ++D+GG  K  A+I            + +  G+K   G+LLYGPPGTGKTLIA+AVA 
Sbjct: 1   VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 60

Query: 257 ECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSS 316
           E    F  + GPE+++K  G+SE N+R  F +A   AP ++F DELD++AP+R +     
Sbjct: 61  ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREK--THG 118

Query: 317 GVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQ 376
            V  R+VSQLL  MDG+     V ++ ATNR + +DPA+ R GR D+ + +G   D   +
Sbjct: 119 EVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIG-IPDATGR 177

Query: 377 LGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIIT-------S 429
           L +L+   +  KL+DDV L+ + +       GAD+ ++CS A  +AIR+ +        +
Sbjct: 178 LEILQIHTKNMKLADDVDLEQVANETH-GHVGADLAALCSEAALQAIRKKMDLIDLEDET 236

Query: 430 APQVKSAPVIVTMDDFLGA 448
                   + VTMDDF  A
Sbjct: 237 IDAEVMNSLAVTMDDFRWA 255

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

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]

 Score =  104 bits (261), Expect = 3e-25
 Identities = 31/203 (15%), Positives = 55/203 (27%), Gaps = 26/203 (12%)

Query: 233 KRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKY-IGQSEENIRNVF----- 286
           K+   L  GP  +GKT +A A+   C    L V  P     + +G + +    VF     
Sbjct: 153 KKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAIDQFLVVFEDVKG 212

Query: 287 -LKARSAAPCVVFFDELDSLAP-RRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGA 344
                   P     + LD+L     G    +           +              +  
Sbjct: 213 TGGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPP----------GIVT 262

Query: 345 TNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKL-SDDVSLDSLVHHFP 403
            N             R  K +     +     L   + ++ K  + S    L  L+ +  
Sbjct: 263 MNE---YSVPKTLQARFVKQIDFRPKDYLKHCLERSEFLLEKRIIQSGIALLLMLIWYR- 318

Query: 404 SQMSGADIYSICSNAWTRAIRRI 426
                A+      +       R+
Sbjct: 319 ---PVAEFAQSIQSRIVEWKERL 338

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

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]

 Score =  101 bits (253), Expect = 5e-25
 Identities = 33/257 (12%), Positives = 65/257 (25%), Gaps = 31/257 (12%)

Query: 204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFL 263
           V++ D    ++L   +    +G            LL G PG+GKT +  A+  E + N +
Sbjct: 4   VNFTDKQFENRLNDNLEELIQGKKAVESPT--AFLLGGQPGSGKTSLRSAIFEETQGNVI 61

Query: 264 AVKGPEL---LNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMD 320
            +           +    +   ++V       +  +                 + +G   
Sbjct: 62  VIDNDTFKQQHPNFDELVKLYEKDVVKHVTPYSNRMTEAIISRLSDQGYNLVIEGTGRTT 121

Query: 321 RVVSQLLA---------EMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
            V  Q            +M  +   +    LG   R + +        R        +  
Sbjct: 122 DVPIQTATMLQAKGYETKMYVMAVPKINSYLGTIERYETMYADDPMTARATPKQAHDI-- 179

Query: 372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAP 431
             +  L      + K  L  D+ L           S  +  SI                 
Sbjct: 180 -VVKNLPTNLETLHKTGLFSDIRL--YNREGVKLYSSLETPSISPKETLEKELN------ 230

Query: 432 QVKSAPVIVTMDDFLGA 448
                   V+  +    
Sbjct: 231 ------RKVSGKEIQPT 241

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 246

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]

 Score =  101 bits (251), Expect = 6e-25
 Identities = 37/245 (15%), Positives = 84/245 (34%), Gaps = 24/245 (9%)

Query: 204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFL 263
           + W D   ++++  +     +    +       +LL GPP +GKT +A  +A E    F+
Sbjct: 12  IKWGD--PVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFI 69

Query: 264 AVKGPELLNKYIGQSEENI-RNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRV 322
            +  P+ +  +   ++    + +F  A  +    V  D+++ L        +     + V
Sbjct: 70  KICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPR---FSNLV 126

Query: 323 VSQLLAEMDGVHTSQDVFI-LGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLK 381
           +  LL  +          + +G T+R D+L    +       +++V         L  L 
Sbjct: 127 LQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEML-NAFSTTIHVPNIATGEQLLEAL- 184

Query: 382 AVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVT 441
                     D    ++      Q+ G  ++          I++++              
Sbjct: 185 ---ELLGNFKDKERTTIAQ----QVKGKKVWI--------GIKKLLMLIEMSLQMDPEYR 229

Query: 442 MDDFL 446
           +  FL
Sbjct: 230 VRKFL 234

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

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]

 Score = 75.4 bits (184), Expect = 4e-16
 Identities = 39/170 (22%), Positives = 64/170 (37%), Gaps = 11/170 (6%)

Query: 205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLA 264
           + ++  G  +LK + L  +    +        LLL+GPPG GKT +A  +A E  +N   
Sbjct: 7   TLDEYIGQERLKQK-LRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRV 65

Query: 265 VKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQ---EDQSSGVMDR 321
             GP +                L        ++F DE+  L+ +  +         VMD 
Sbjct: 66  TSGPAIEKP-------GDLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDI 118

Query: 322 VVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYE 371
           V+ Q  A            ++GAT R  L+   +L    + + L     E
Sbjct: 119 VIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPE 168

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

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]

 Score = 69.5 bits (169), Expect = 1e-13
 Identities = 41/247 (16%), Positives = 73/247 (29%), Gaps = 35/247 (14%)

Query: 232 LKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK--YIGQSEENIRNVFLKA 289
           +    +L+ GP G GKT IA+ +A      F+ V+  +         + +  IR++   A
Sbjct: 47  VTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSA 106

Query: 290 -----RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDR-VVSQLLAEMDG---------VH 334
                      +VF DE+D +  +   E   + V    V   LL  ++G         V 
Sbjct: 107 GGAIDAVEQNGIVFIDEIDKICKKG--EYSGADVSREGVQRDLLPLVEGSTVSTKHGMVK 164

Query: 335 TSQDVFIL-GATNRVDLLDPAILRPGRLDKSLYVGLYED-------RISQLGVLKAVVRK 386
           T   +FI  GA       D      GRL   + +                  + +     
Sbjct: 165 TDHILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKAL 224

Query: 387 FKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIIT--------SAPQVKSAPV 438
                     +         +   +     N   R +  ++         SA  +    V
Sbjct: 225 MATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFSASDMNGQTV 284

Query: 439 IVTMDDF 445
            +     
Sbjct: 285 NIDAAYV 291

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

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]

 Score = 67.5 bits (163), Expect = 4e-13
 Identities = 29/242 (11%), Positives = 59/242 (24%), Gaps = 16/242 (6%)

Query: 218 EILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN----FLAVKGPELLNK 273
           ++        R  G       L G PGTGKT+  + +    +      F+ + G    N 
Sbjct: 27  QLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNF 86

Query: 274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQ-------EDQSSGVMDRVVSQL 326
                E          R       F   L      R         +  +           
Sbjct: 87  TAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIR 146

Query: 327 LAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK 386
           L +      +  + ++   +   +L+        +     +        Q+  +     K
Sbjct: 147 LGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAK 206

Query: 387 FKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAI---RRIITSAPQVKSAPVIVTMD 443
             L++    + ++                      AI    R   +A Q       +  +
Sbjct: 207 AGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRK--HIAPE 264

Query: 444 DF 445
           D 
Sbjct: 265 DV 266

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]} Length = 238

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]

 Score = 57.7 bits (138), Expect = 4e-10
 Identities = 38/221 (17%), Positives = 74/221 (33%), Gaps = 10/221 (4%)

Query: 205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLA 264
           S ++  G   +K + LS      +  G     +LL GPPG GKT +A  +A+E + N   
Sbjct: 7   SLDEFIGQENVK-KKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHV 65

Query: 265 VKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVS 324
             GP L+ +      +    +    R     +     L+               +D ++ 
Sbjct: 66  TSGPVLVKQ-----GDMAAILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIG 120

Query: 325 QLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVV 384
           +  +        Q   ++GAT R  LL   +    R    L +  Y  +  +  + +A  
Sbjct: 121 KGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRS--RFGIILELDFYTVKELKEIIKRAAS 178

Query: 385 RKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR 425
                 +D + + +     S+ +      +           
Sbjct: 179 LMDVEIEDAAAEMIAKR--SRGTPRIAIRLTKRVRDMLTVV 217

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

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]

 Score = 44.0 bits (102), Expect = 2e-05
 Identities = 21/119 (17%), Positives = 40/119 (33%), Gaps = 17/119 (14%)

Query: 205 SWEDIGGLSKLKAEILS-----------TFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKA 253
           + + + G      ++ +           +F+   +         +LYGPPG GKT  A  
Sbjct: 12  NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHL 71

Query: 254 VATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE 312
           VA E   + L     ++ +K +      +      A      V +F   +      G+ 
Sbjct: 72  VAQELGYDILEQNASDVRSKTL------LNAGVKNALDNMSVVGYFKHNEEAQNLNGKH 124

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

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]

 Score = 44.0 bits (102), Expect = 2e-05
 Identities = 26/243 (10%), Positives = 45/243 (18%), Gaps = 35/243 (14%)

Query: 217 AEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA--------------------- 255
           A I                     G  G GKT +AK                        
Sbjct: 29  ARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNA 88

Query: 256 ----TECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFF--DELDSLAPRR 309
                   +  L V+      +  G    +I    +         +    DE  S+    
Sbjct: 89  FNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSML-SS 147

Query: 310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
            +           V + +   DGV+    + +      +  +   I +            
Sbjct: 148 PRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLP 207

Query: 370 YEDRISQLGVLKAVVRKFKLSDDVSLDSLVH-------HFPSQMSGADIYSICSNAWTRA 422
                    +L+                L               S          A   A
Sbjct: 208 AYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSARRAIVALKMACEMA 267

Query: 423 IRR 425
              
Sbjct: 268 EAM 270

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 443

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]

 Score = 44.4 bits (104), Expect = 2e-05
 Identities = 25/131 (19%), Positives = 50/131 (38%), Gaps = 9/131 (6%)

Query: 232 LKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARS 291
           +    +L+ GP G GKT IA+ +A      F+ V+  +     +G   + + ++      
Sbjct: 47  VTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKF--TEVGYVGKEVDSIIRDLTD 104

Query: 292 AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLL 351
           +A  +V   E+      + +        +R++  LL          +     ++ R    
Sbjct: 105 SAMKLVRQQEIA-----KNRARAEDVAEERILDALLPPAKNQWGEVENHDSHSSTRQAFR 159

Query: 352 DPAILRPGRLD 362
               LR G+LD
Sbjct: 160 KK--LREGQLD 168

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]} Length = 247

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]

 Score = 39.1 bits (91), Expect = 6e-04
 Identities = 34/179 (18%), Positives = 59/179 (32%), Gaps = 23/179 (12%)

Query: 208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKA------------VA 255
           +    S    EIL   + ++         +L+ G  G GK ++A+             VA
Sbjct: 1   EYVFESPKMKEILEKIKKISCA----ECPVLITGESGVGKEVVARLIHKLSDRSKEPFVA 56

Query: 256 TECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS 315
                    +   EL     G     + +       A    +F DE+  L     Q    
Sbjct: 57  LNVASIPRDIFEAELFGYEKGAFTGAVSSKEGFFELADGGTLFLDEIGEL-SLEAQAKLL 115

Query: 316 SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRI 374
             +      +L    +      +V IL ATNR ++    +++ G+  + LY  L    I
Sbjct: 116 RVIESGKFYRLGGRKE---IEVNVRILAATNR-NI--KELVKEGKFREDLYYRLGVIEI 168

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]} Length = 333

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]

 Score = 39.5 bits (91), Expect = 6e-04
 Identities = 9/21 (42%), Positives = 15/21 (71%)

Query: 236 GLLLYGPPGTGKTLIAKAVAT 256
           G+L++G  GTGK+   +A+A 
Sbjct: 30  GVLVFGDRGTGKSTAVRALAA 50

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]} Length = 268

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]

 Score = 37.3 bits (86), Expect = 0.003
 Identities = 26/142 (18%), Positives = 52/142 (36%), Gaps = 25/142 (17%)

Query: 233 KRSGLLLYGPPGTGKTLIAKAVA------------TECRMNFLAVKGPELLNKYIGQSEE 280
           +++  LL G  G GKT IA+ +A             +C +  L +       KY G  E+
Sbjct: 38  RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEK 97

Query: 281 NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVF 340
             + +  +       ++F DE+ ++              + +   L        +S  + 
Sbjct: 98  RFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLL--------SSGKIR 149

Query: 341 ILGATN-----RVDLLDPAILR 357
           ++G+T       +   D A+ R
Sbjct: 150 VIGSTTYQEFSNIFEKDRALAR 171

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]} Length = 364

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]

 Score = 37.1 bits (85), Expect = 0.004
 Identities = 27/115 (23%), Positives = 46/115 (40%), Gaps = 10/115 (8%)

Query: 224 RGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIR 283
                   L +S +LL GP G+GKTL+A+ +A    +         L     G   E++ 
Sbjct: 58  LEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSL--TEAGYVGEDVE 115

Query: 284 NVFLKARSAAP--------CVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEM 330
           N+  +   A+          +VF DE+D ++        +  V    V Q L ++
Sbjct: 116 NILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKI 170

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	478
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	100.0
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	100.0
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.91
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.91
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.9
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.9
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.87
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.87
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.87
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.83
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.83
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.73
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.69
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.68
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.68
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.63
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.62
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.62
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.62
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.62
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.61
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.59
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.59
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.56
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.56
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.49
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.48
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.42
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.39
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.39
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.3
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	99.21
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.09
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.09
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	99.05
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.9
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.8
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	98.53
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.44
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.42
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.23
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.14
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.1
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.04
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.94
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.94
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.92
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.89
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.88
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.85
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.81
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.8
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.78
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.78
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.77
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	97.69
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.68
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.68
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	97.63
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.61
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.61
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.6
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.57
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.53
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.51
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.5
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.45
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.45
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.44
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.43
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.43
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.43
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.41
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.39
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.39
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.38
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.37
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.36
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.36
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.35
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.34
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.34
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.34
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.34
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.34
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.34
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.28
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.27
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.26
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.23
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.21
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.21
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	97.19
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.19
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.17
d1okkd2	207	GTPase domain of the signal recognition particle r	97.17
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.12
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.04
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.94
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.93
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.92
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.91
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.91
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.9
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.9
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.89
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.86
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	96.85
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.85
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.84
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.81
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.78
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.71
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.7
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.7
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.65
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.6
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.58
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.52
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.5
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.47
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.33
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	96.21
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	96.17
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	96.15
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.04
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.01
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.01
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.0
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.96
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	95.91
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.91
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.91
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.83
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	95.83
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.83
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.81
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.75
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.74
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.72
d1tuea_	205	Replication protein E1 helicase domain {Human papi	95.68
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.52
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.4
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.4
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	95.33
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.25
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.22
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	95.21
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.15
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.1
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	95.09
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.02
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.95
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.95
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	94.94
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.94
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	94.84
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.82
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.69
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.52
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.44
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.34
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	94.33
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.3
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	94.27
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.2
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.17
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.16
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.15
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.11
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.1
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.04
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.02
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	94.01
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.77
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.77
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.74
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	93.64
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.58
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.47
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.47
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	93.46
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.39
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	93.38
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.22
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.21
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.18
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.15
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.14
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.13
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.12
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.09
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.06
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.05
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	92.98
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.93
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.88
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	92.88
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.83
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	92.82
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.8
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	92.77
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	92.68
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	92.61
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	92.57
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.56
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.45
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	92.44
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.43
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.38
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.3
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.3
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.25
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.16
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	92.16
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.09
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	92.09
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.04
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.01
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	91.95
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	91.91
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	91.91
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	91.88
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	91.83
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.82
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	91.76
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.61
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	91.57
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	91.55
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.5
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	91.48
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	91.29
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	91.22
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	91.15
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	91.14
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	91.12
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.99
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	90.88
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	90.88
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	90.87
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	90.82
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	90.76
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	90.63
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	90.62
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	90.59
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	90.5
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	90.5
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	90.2
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	89.94
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	89.78
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	89.74
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	89.61
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	89.46
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.44
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	89.13
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	88.87
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	88.78
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	88.78
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	88.38
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	88.1
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	88.0
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	86.89
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	86.84
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	86.63
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	86.43
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	86.34
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	85.96
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	85.81
d1xpua3	289	Transcription termination factor Rho, ATPase domai	85.76
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	85.73
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	85.5
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	85.04
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	84.28
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	83.84
d1c4oa1	408	Nucleotide excision repair enzyme UvrB {Thermus th	83.77
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	83.26
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	83.14
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	83.1
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	83.02
d1z3ix2	298	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	82.85
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	82.74
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	82.43
d1z63a1	230	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	82.38
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	81.56
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	81.16
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	80.36
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	80.35
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	80.34

>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=100.00  E-value=1.4e-43  Score=331.58  Aligned_cols=237  Identities=33%  Similarity=0.588  Sum_probs=209.2

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhh-----hhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGV-----NRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~-----~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      +-|+++|++|+|++++|++|++.+...     ....|.+ ++++||+||||||||++|+++|++++.+++.++++++.++
T Consensus         2 ~~p~~~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~   81 (247)
T d1ixza_           2 EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM   81 (247)
T ss_dssp             CCCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHS
T ss_pred             CCCCCcHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhc
Confidence            358899999999999999999877554     2234555 8899999999999999999999999999999999999999


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCC-CchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCC
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ-SSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD  352 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld  352 (478)
                      |+|++++.++.+|+.|+..+||||||||+|.++++++.... ......+++++|+..|+++..+.+++||+|||+|+.+|
T Consensus        82 ~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld  161 (247)
T d1ixza_          82 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILD  161 (247)
T ss_dssp             CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSC
T ss_pred             cccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccC
Confidence            99999999999999999999999999999999987654332 23345678999999999988888999999999999999


Q ss_pred             ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy450          353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ  432 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~  432 (478)
                      ++++|+|||+..++++. |+.++|.+||+.++++.+...+++++.+++.+ .||+|+||.++|++|+..|+++.      
T Consensus       162 ~al~R~~Rf~~~i~~~~-P~~~eR~~il~~~l~~~~~~~~~~~~~la~~t-~g~s~~di~~lv~~A~l~a~~~~------  233 (247)
T d1ixza_         162 PALLRPGRFDRQIAIDA-PDVKGREQILRIHARGKPLAEDVDLALLAKRT-PGFVGADLENLLNEAALLAAREG------  233 (247)
T ss_dssp             GGGGSTTSSCEEEECCS-CCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTC-TTCCHHHHHHHHHHHHHHHHHTT------
T ss_pred             HhHcCCCCCcEEEEECC-cCHHHHHHHHHHHhcccCCccccCHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHcC------
Confidence            99999999999999997 69999999999999999988999999999987 89999999999999999888763      


Q ss_pred             CCCCCccccHHHHHhc
Q psy450          433 VKSAPVIVTMDDFLGA  448 (478)
Q Consensus       433 ~~~~~~~it~~d~~~A  448 (478)
                          ...|+++||.+|
T Consensus       234 ----~~~i~~~d~~~A  245 (247)
T d1ixza_         234 ----RRKITMKDLEEA  245 (247)
T ss_dssp             ----CSSBCHHHHHHH
T ss_pred             ----CCCcCHHHHHHh
Confidence                457999999999

>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=100.00  E-value=1.3e-43  Score=333.00  Aligned_cols=242  Identities=33%  Similarity=0.606  Sum_probs=214.1

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhh-----hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVN-----RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~-----~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      +..++++|+|++|++++|++|.+.+.+..     ...|.+ |+++||+||||||||++|+++|++++.+++.++++++.+
T Consensus         4 ~~~~~~t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~   83 (256)
T d1lv7a_           4 EDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVE   83 (256)
T ss_dssp             ECSSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTT
T ss_pred             CCCCCCCHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhh
Confidence            34678999999999999999999876642     122344 889999999999999999999999999999999999999


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCC-chhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCC
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS-SGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLL  351 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~l  351 (478)
                      .|.|+++..++.+|+.|+..+||||||||+|.+++.++....+ .....+++++|+..++++..+.+++||+|||+|+.+
T Consensus        84 ~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~l  163 (256)
T d1lv7a_          84 MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVL  163 (256)
T ss_dssp             SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTS
T ss_pred             cchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccC
Confidence            9999999999999999999999999999999999876544332 234467889999999998888899999999999999


Q ss_pred             CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCC
Q psy450          352 DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAP  431 (478)
Q Consensus       352 d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~  431 (478)
                      |++++|||||+..+++++ |+.++|.+|++.++++.++..++++..++..+ .||+|+||.++|++|+..|+++.     
T Consensus       164 d~al~R~gRfd~~i~i~~-P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t-~G~s~adi~~l~~~A~~~a~~~~-----  236 (256)
T d1lv7a_         164 DPALLRPGRFDRQVVVGL-PDVRGREQILKVHMRRVPLAPDIDAAIIARGT-PGFSGADLANLVNEAALFAARGN-----  236 (256)
T ss_dssp             CGGGGSTTSSCEEEECCC-CCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTC-TTCCHHHHHHHHHHHHHHHHHTT-----
T ss_pred             CHhHcCCCCCCEEEECCC-cCHHHHHHHHHHhccCCCcCcccCHHHHHHhC-CCCCHHHHHHHHHHHHHHHHHcC-----
Confidence            999999999999999997 69999999999999999999999999999987 89999999999999998888653     


Q ss_pred             CCCCCCccccHHHHHhchhccCCCccc
Q psy450          432 QVKSAPVIVTMDDFLGACSLATAPDKF  458 (478)
Q Consensus       432 ~~~~~~~~it~~d~~~A~~~~~~l~~~  458 (478)
                           ...|+.+||.+|      ++++
T Consensus       237 -----~~~i~~~d~~~A------l~rv  252 (256)
T d1lv7a_         237 -----KRVVSMVEFEKA------KDKI  252 (256)
T ss_dssp             -----CSSBCHHHHHHH------HHHH
T ss_pred             -----CCccCHHHHHHH------HHHH
Confidence                 457999999999      7664

>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=100.00  E-value=1.3e-41  Score=321.47  Aligned_cols=241  Identities=41%  Similarity=0.669  Sum_probs=212.2

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhh------hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhc
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVN------RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIG  276 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~------~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g  276 (478)
                      ++|+|++|++++|++|++.+..+.      ...|.+ |+|+|||||||||||++++++|++++.+++.++++++.+.+.|
T Consensus         1 ~~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g   80 (258)
T d1e32a2           1 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAG   80 (258)
T ss_dssp             CCGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTT
T ss_pred             CChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcccccc
Confidence            479999999999999999887652      334555 8899999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCcccc
Q psy450          277 QSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAIL  356 (478)
Q Consensus       277 ~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~  356 (478)
                      .++..++.+|..|+...||||||||+|.+++++++..  .+...+++..++..+++.....+++||+|||+|+.+|++++
T Consensus        81 ~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~--~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~  158 (258)
T d1e32a2          81 ESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH--GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALR  158 (258)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCC--CTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGT
T ss_pred             cHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCC--CchHHHHHHHhccccccccccCCccEEEeCCCccccchhhh
Confidence            9999999999999999999999999999998765432  23346788888888888888889999999999999999999


Q ss_pred             CCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCC---
Q psy450          357 RPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQV---  433 (478)
Q Consensus       357 ~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~---  433 (478)
                      |||||+..|++++ |+.++|..||+.++++..+..++++..+++++ +||||+||.++|++|+..|++|........   
T Consensus       159 r~gRfd~~i~~~~-P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t-~G~s~adl~~lv~~A~~~a~~~~~~~~~~~~~~  236 (258)
T d1e32a2         159 RFGRFDREVDIGI-PDATGRLEILQIHTKNMKLADDVDLEQVANET-HGHVGADLAALCSEAALQAIRKKMDLIDLEDET  236 (258)
T ss_dssp             STTSSCEEEECCC-CCHHHHHHHHHHTTTTSCBCTTCCHHHHHHHC-TTCCHHHHHHHHHHHHHHHHHHHHHHHCCCSSC
T ss_pred             hcccccceeECCC-CCHHHHHHHhhhhccCcccccccchhhhhhcc-cCCCHHHHHHHHHHHHHHHHHhhccccchhhhh
Confidence            9999999999998 79999999999999999988899999999998 899999999999999999998864321110   


Q ss_pred             ----CCCCccccHHHHHhc
Q psy450          434 ----KSAPVIVTMDDFLGA  448 (478)
Q Consensus       434 ----~~~~~~it~~d~~~A  448 (478)
                          ......||++||..|
T Consensus       237 ~~~~~~~~~~it~~Df~~A  255 (258)
T d1e32a2         237 IDAEVMNSLAVTMDDFRWA  255 (258)
T ss_dssp             CBHHHHHHCCBCHHHHHHH
T ss_pred             hhhhhhccCccCHHHHHHH
Confidence                112456999999999

>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=100.00  E-value=2.1e-40  Score=313.95  Aligned_cols=226  Identities=52%  Similarity=0.884  Sum_probs=194.2

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhh------hhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVN------RTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~------~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      +|+.+|++++|++++|++|.+.+..+.      ...|.+ ++|+|||||||||||++++++|++++.+++.++++++.+.
T Consensus         1 ~p~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~   80 (265)
T d1r7ra3           1 VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTM   80 (265)
T ss_dssp             CCCCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTS
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhc
Confidence            488999999999999999999887663      234666 7899999999999999999999999999999999999999


Q ss_pred             hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCC-CchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCC
Q psy450          274 YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQ-SSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD  352 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld  352 (478)
                      +.|.++..++.+|..|+...||||+|||+|.++..++.... .....+++++.++..++++....+++||+|||+|+.+|
T Consensus        81 ~~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld  160 (265)
T d1r7ra3          81 WFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIID  160 (265)
T ss_dssp             CTTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTS
T ss_pred             cccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCC
Confidence            99999999999999999999999999999999976543322 23344678899999999988888899999999999999


Q ss_pred             ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHh
Q psy450          353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIIT  428 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~  428 (478)
                      ++++|+|||+..++++. |+.++|.+||+.++++.....++++..++.++ +||+++||.++|++|...|+++...
T Consensus       161 ~al~r~gRf~~~i~~~~-p~~~~R~~il~~~l~~~~~~~~~~l~~la~~t-~g~s~~di~~lv~~A~~~A~~~~~~  234 (265)
T d1r7ra3         161 PAILRPGRLDQLIYIPL-PDEKSRVAILKANLRKSPVAKDVDLEFLAKMT-NGFSGADLTEICQRACKLAIRESIE  234 (265)
T ss_dssp             CGGGSSTTSEEEEECCC-CCCHHHHHHHHHHTTCC----CCCCHHHHHHH-CSSCCHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHhCCCCccEEEEecc-hHHHHHHHHHHHHhccCCchhhhhHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999997 79999999999999998888899999999998 8999999999999999999988643

>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=99.91  E-value=1.5e-24  Score=201.86  Aligned_cols=194  Identities=17%  Similarity=0.238  Sum_probs=138.1

Q ss_pred             CCcccccCcHHHHHHHHH----HHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcch-
Q psy450          204 VSWEDIGGLSKLKAEILS----TFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQS-  278 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~----~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~-  278 (478)
                      +-.+.++|+.+..+.+..    ++.........+++++||+||||||||++|+++|++++.+++.+++++....+.+.. 
T Consensus         6 ~~~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~~   85 (246)
T d1d2na_           6 YIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAK   85 (246)
T ss_dssp             TCTTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHH
T ss_pred             hhccCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccch
Confidence            334556665544444433    333333333344789999999999999999999999999999999988766655554 


Q ss_pred             HHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCC-CCeEEEEEcCCCCCCCccccC
Q psy450          279 EENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTS-QDVFILGATNRVDLLDPAILR  357 (478)
Q Consensus       279 ~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~-~~v~vI~ttn~~~~ld~~l~~  357 (478)
                      ...++++|..|+..+||||||||+|.+.+.+..+...   ..+++++++..+++.... .+++||+|||+|+.+|++.++
T Consensus        86 ~~~i~~if~~A~~~~p~il~iDEid~l~~~~~~~~~~---~~~~~~~ll~~l~~~~~~~~~v~vi~tTn~~~~ld~~~~~  162 (246)
T d1d2na_          86 CQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRF---SNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEML  162 (246)
T ss_dssp             HHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBC---CHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCT
T ss_pred             hhhhhhhhhhhhhcccceeehhhhhhHhhhcccccch---hHHHHHHHHHHhcCCCccccceeeeeccCChhhccchhhc
Confidence            4668999999999999999999999998766433222   256778889999877543 368999999999999876443


Q ss_pred             CCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCC
Q psy450          358 PGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQM  406 (478)
Q Consensus       358 ~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~  406 (478)
                       +||+..|++|.++.++++..+++.   ... ..+.++..++..+ .|.
T Consensus       163 -~rF~~~i~~P~~~~r~~il~~l~~---~~~-~~~~~~~~i~~~~-~g~  205 (246)
T d1d2na_         163 -NAFSTTIHVPNIATGEQLLEALEL---LGN-FKDKERTTIAQQV-KGK  205 (246)
T ss_dssp             -TTSSEEEECCCEEEHHHHHHHHHH---HTC-SCHHHHHHHHHHH-TTS
T ss_pred             -CccceEEecCCchhHHHHHHHHHh---ccC-CChHHHHHHHHHc-CCC
Confidence             499999999665555555444433   222 2234466777766 443

>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=99.91  E-value=1.5e-24  Score=201.62  Aligned_cols=150  Identities=15%  Similarity=0.188  Sum_probs=131.1

Q ss_pred             HHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhh
Q psy450           16 LSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQ   82 (478)
Q Consensus        16 l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~   82 (478)
                      .+.++++|++++.+ +++++|+ .|++++||||||||+|+|+++|             .++.+|+.||++          
T Consensus        75 ~~~l~~~~~g~~~~-~l~~~f~-~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~----------  142 (247)
T d1ixza_          75 GSDFVEMFVGVGAA-RVRDLFE-TAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGF----------  142 (247)
T ss_dssp             HHHHHHSCTTHHHH-HHHHHHH-HHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTC----------
T ss_pred             hHHhhhccccHHHH-HHHHHHH-HHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCC----------
Confidence            35778889888777 8999999 9999999999999999999875             577888888854          


Q ss_pred             hccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHH
Q psy450           83 QCKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHD  153 (478)
Q Consensus        83 ~~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~d  153 (478)
                        ..+.+|+|||       +||+++|  ||+++|+|+.|+.++|.+||+.++.+.  ++..+.++ +.+++.|+||+|+|
T Consensus       143 --~~~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~--~~~~~~~~-~~la~~t~g~s~~d  217 (247)
T d1ixza_         143 --EKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGK--PLAEDVDL-ALLAKRTPGFVGAD  217 (247)
T ss_dssp             --CTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTS--CBCTTCCH-HHHHHTCTTCCHHH
T ss_pred             --CCCCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhccc--CCccccCH-HHHHHHCCCCCHHH
Confidence              4566799998       9999998  999999999999999999999999877  55677777 99999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Q psy450          154 LTCLVRLSVKNKMLKQGINKRDLQKEDFQQIY  185 (478)
Q Consensus       154 i~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~  185 (478)
                      |+.+|++|+..++++   ....|+++||+.|+
T Consensus       218 i~~lv~~A~l~a~~~---~~~~i~~~d~~~A~  246 (247)
T d1ixza_         218 LENLLNEAALLAARE---GRRKITMKDLEEAA  246 (247)
T ss_dssp             HHHHHHHHHHHHHHT---TCSSBCHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHc---CCCCcCHHHHHHhh
Confidence            999999999988765   56789999999885

>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=99.90  E-value=2.2e-24  Score=201.29  Aligned_cols=151  Identities=16%  Similarity=0.194  Sum_probs=132.9

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhhcc
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQCK   85 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~~~   85 (478)
                      ++++|++++.. +++.+|+ .|+..+||||||||+|++++.|             .++++|+.||++            .
T Consensus        81 l~~~~~g~~~~-~l~~~f~-~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~------------~  146 (256)
T d1lv7a_          81 FVEMFVGVGAS-RVRDMFE-QAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGF------------E  146 (256)
T ss_dssp             STTSCCCCCHH-HHHHHHH-HHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTC------------C
T ss_pred             hhhcchhHHHH-HHHHHHH-HHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCC------------C
Confidence            45677777766 8999999 9999999999999999999765             567888888854            4


Q ss_pred             CCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHH
Q psy450           86 QQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTC  156 (478)
Q Consensus        86 ~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~  156 (478)
                      .+.+|+|||       +|||++|  |||++|+|++|+.++|.+||+.++.+.  ++..++++ ..+++.|+||+|+||..
T Consensus       147 ~~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~--~~~~~~~~-~~la~~t~G~s~adi~~  223 (256)
T d1lv7a_         147 GNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRV--PLAPDIDA-AIIARGTPGFSGADLAN  223 (256)
T ss_dssp             SSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS--CBCTTCCH-HHHHHTCTTCCHHHHHH
T ss_pred             CCCCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCC--CcCcccCH-HHHHHhCCCCCHHHHHH
Confidence            566799998       9999999  999999999999999999999999887  56677887 99999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          157 LVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       157 l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      +|++|+..+.++   +...++.+||+.|++++.
T Consensus       224 l~~~A~~~a~~~---~~~~i~~~d~~~Al~rv~  253 (256)
T d1lv7a_         224 LVNEAALFAARG---NKRVVSMVEFEKAKDKIM  253 (256)
T ss_dssp             HHHHHHHHHHHT---TCSSBCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHc---CCCccCHHHHHHHHHHHh
Confidence            999999988765   566799999999998874

>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=99.90  E-value=1.3e-26  Score=220.97  Aligned_cols=150  Identities=18%  Similarity=0.214  Sum_probs=121.8

Q ss_pred             CceEE-EeCCCCChHHHHHHHHHHHhC--CcEEEEechhhhhhhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCC
Q psy450          234 RSGLL-LYGPPGTGKTLIAKAVATECR--MNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRG  310 (478)
Q Consensus       234 ~~~iL-l~Gp~GtGKT~la~~la~~~~--~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~  310 (478)
                      ++|++ ++||||||||.+|+++|.+++  .+|+.++++++.++|.|++++.++.+|+.|+.  ||||||||||.+.+.++
T Consensus       122 ~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~--~~ilf~DEid~~~~~r~  199 (321)
T d1w44a_         122 ASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ--HRVIVIDSLKNVIGAAG  199 (321)
T ss_dssp             ESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH--CSEEEEECCTTTC----
T ss_pred             CCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhh--ccEEEeehhhhhccccc
Confidence            55655 589999999999999999986  68999999999999999999999999999985  78999999999999886


Q ss_pred             CCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCC----CccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc
Q psy450          311 QEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLL----DPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK  386 (478)
Q Consensus       311 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~l----d~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~  386 (478)
                      ++.. .+...+++++++.+||++....+++||+|||+ +.+    +++++|+|||+..++++. |+.+.|+.|++.+.++
T Consensus       200 ~~~~-~~~~~r~v~~lL~e~dg~~~~~~v~viaatN~-~~~~~~i~~~~~r~~Rf~~~v~v~~-pd~~~r~~il~~~~~~  276 (321)
T d1w44a_         200 GNTT-SGGISRGAFDLLSDIGAMAASRGCVVIASLNP-TSNDDKIVELVKEASRSNSTSLVIS-TDVDGEWQVLTRTGEG  276 (321)
T ss_dssp             --------CCHHHHHHHHHHHHHHHHHTCEEEEECCC-CCCCHHHHHHHHHHHHHSCSEEEEE-CSSTTEEEEEEECBTT
T ss_pred             cCCC-CCcchhhhhhhhhhccccccCCCeEEEEeCCC-cccccchhhhhhccCcccceeecCC-CChHHHHHHHHHhccC
Confidence            4433 23346899999999999988889999999995 444    455679999999999997 6899998888766655


Q ss_pred             CC
Q psy450          387 FK  388 (478)
Q Consensus       387 ~~  388 (478)
                      +.
T Consensus       277 ~~  278 (321)
T d1w44a_         277 LQ  278 (321)
T ss_dssp             CC
T ss_pred             cc
Confidence            43

>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=99.87  E-value=7.4e-23  Score=192.02  Aligned_cols=151  Identities=17%  Similarity=0.215  Sum_probs=124.4

Q ss_pred             HHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch----------hhHhhhccccccccccccchhhhccCCC
Q psy450           19 LLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK----------YVYFKLCSFDSVNVKSNETKDQQCKQQH   88 (478)
Q Consensus        19 ~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r----------~~~~~l~~~d~~~~~~~~~~~~~~~~~~   88 (478)
                      +.++|.+++ ..+++.+|+ .|+..+||||||||+|.++++|          .++.++..++.            .....
T Consensus        74 l~~~~~g~~-~~~l~~~f~-~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~------------~~~~~  139 (258)
T d1e32a2          74 IMSKLAGES-ESNLRKAFE-EAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDG------------LKQRA  139 (258)
T ss_dssp             HTTSCTTHH-HHHHHHHHH-HHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHT------------CCCSS
T ss_pred             hcccccccH-HHHHHHHHH-HHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhcccccc------------ccccC
Confidence            334444444 459999999 9999999999999999999887          34555555553            35566


Q ss_pred             cEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHH
Q psy450           89 KKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVR  159 (478)
Q Consensus        89 ~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~  159 (478)
                      +|+|||       +|||++|  |||++|+|++|+.++|.+||+.++++.  ++..+.++ +.||+.|+||||+||+.+|+
T Consensus       140 ~vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~--~~~~~~~~-~~la~~t~G~s~adl~~lv~  216 (258)
T d1e32a2         140 HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNM--KLADDVDL-EQVANETHGHVGADLAALCS  216 (258)
T ss_dssp             CEEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTS--CBCTTCCH-HHHHHHCTTCCHHHHHHHHH
T ss_pred             CccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCc--ccccccch-hhhhhcccCCCHHHHHHHHH
Confidence            788888       9999999  999999999999999999999999877  56677787 99999999999999999999


Q ss_pred             HHHHHHHHhhc--------------CCCCCCCHHHHHHHHH
Q psy450          160 LSVKNKMLKQG--------------INKRDLQKEDFQQIYD  186 (478)
Q Consensus       160 ~a~~~a~~~~~--------------~~~~~it~~d~~~a~~  186 (478)
                      +|+..++++..              ....+++++||..|+.
T Consensus       217 ~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~it~~Df~~AL~  257 (258)
T d1e32a2         217 EAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALS  257 (258)
T ss_dssp             HHHHHHHHHHHHHHCCCSSCCBHHHHHHCCBCHHHHHHHHT
T ss_pred             HHHHHHHHhhccccchhhhhhhhhhhccCccCHHHHHHHhC
Confidence            99998875421              1245689999999875

>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=99.87  E-value=3.4e-22  Score=192.35  Aligned_cols=171  Identities=20%  Similarity=0.290  Sum_probs=135.8

Q ss_pred             cccCcHHHHHHHHHHHHhhhhh--------CCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh--hhhhcc
Q psy450          208 DIGGLSKLKAEILSTFRGVNRT--------SGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL--NKYIGQ  277 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~--------~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~--~~~~g~  277 (478)
                      .++|++++|+.+...+..+..+        .+.+++++||+||||||||++|+++|+.++.+++.++++++.  +.+.|.
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~   94 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   94 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGS
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeee
Confidence            3689999999999888544222        223578999999999999999999999999999999999997  447899


Q ss_pred             hHHHHHHHHHHhHh-----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC--------CCCeEEEEE
Q psy450          278 SEENIRNVFLKARS-----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT--------SQDVFILGA  344 (478)
Q Consensus       278 ~~~~~~~~~~~a~~-----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--------~~~v~vI~t  344 (478)
                      ++..++.+|..+..     ..||||||||+|++++++.+.. .....+.+++.|+..+++...        .+++++|++
T Consensus        95 ~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~-~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~ilfi~~  173 (309)
T d1ofha_          95 VDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSG-ADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIAS  173 (309)
T ss_dssp             TTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCS-SHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEE
T ss_pred             ccccccccchhhhcccccccCCceEEehhhhhhhhhccCcc-cchhhhHHHHHhhHHhcCCEEecCCeEEEccceeEEec
Confidence            99999999998854     3579999999999998764332 111224578889999987432        335667766


Q ss_pred             ----cCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHH
Q psy450          345 ----TNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKA  382 (478)
Q Consensus       345 ----tn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~  382 (478)
                          ++++..++|+++.  ||+..+.++. |+..++.+|++.
T Consensus       174 ga~~~~~~~~~~p~l~~--R~~~~i~~~~-~~~~~~~~Il~~  212 (309)
T d1ofha_         174 GAFQVARPSDLIPELQG--RLPIRVELTA-LSAADFERILTE  212 (309)
T ss_dssp             ECCSSSCGGGSCHHHHH--TCCEEEECCC-CCHHHHHHHHHS
T ss_pred             cchhhcCcccchhhhhh--hhheeeeccC-CCHHHHHHHHHH
Confidence                5677888888886  9999999986 799999999753

>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=99.87  E-value=4.1e-21  Score=178.09  Aligned_cols=209  Identities=19%  Similarity=0.250  Sum_probs=153.1

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHH
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENI  282 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~  282 (478)
                      +.+|++++|++++++.|..++...... +....++|||||||||||++|+++|++++.++..++..+..      ....+
T Consensus         5 P~~~~divGqe~~~~~l~~~i~~~~~~-~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~------~~~~~   77 (238)
T d1in4a2           5 PKSLDEFIGQENVKKKLSLALEAAKMR-GEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLV------KQGDM   77 (238)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHHHHH-TCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCC------SHHHH
T ss_pred             CCcHHHcCChHHHHHHHHHHHHHHHhc-CCCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccc------cHHHH
Confidence            357999999999999999998776443 33356899999999999999999999999999998876653      22334


Q ss_pred             HHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC----------------CCCCeEEEEEcC
Q psy450          283 RNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH----------------TSQDVFILGATN  346 (478)
Q Consensus       283 ~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~----------------~~~~v~vI~ttn  346 (478)
                      ...+...  ...+++++||+|.+.+.             ....++..++...                ...++++|++||
T Consensus        78 ~~~~~~~--~~~~~~~ide~~~~~~~-------------~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~  142 (238)
T d1in4a2          78 AAILTSL--ERGDVLFIDEIHRLNKA-------------VEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATT  142 (238)
T ss_dssp             HHHHHHC--CTTCEEEEETGGGCCHH-------------HHHHHHHHHHTSCCCC---------------CCCEEEEEES
T ss_pred             HHHHHhh--ccCCchHHHHHHHhhhH-------------HHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecC
Confidence            4444443  33479999999998632             2222332222111                134689999999


Q ss_pred             CCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC-HHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Q psy450          347 RVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS-LDSLVHHFPSQMSGADIYSICSNAWTRAIRR  425 (478)
Q Consensus       347 ~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~-~~~la~~~~~~~sg~di~~l~~~a~~~a~~r  425 (478)
                      .+..+++++++  ||...+.++. |+.+++..+++......+...+.+ +..++..+  +.+++.+.++++.+...+...
T Consensus       143 ~~~~~~~~~~~--r~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~s--~gd~R~ai~~l~~~~~~~~~~  217 (238)
T d1in4a2         143 RSGLLSSPLRS--RFGIILELDF-YTVKELKEIIKRAASLMDVEIEDAAAEMIAKRS--RGTPRIAIRLTKRVRDMLTVV  217 (238)
T ss_dssp             CGGGSCHHHHT--TCSEEEECCC-CCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTS--TTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCcccccccee--eeeEEEEecC-CCHHHHHHHHHHhhhhccchhhHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHh
Confidence            99999999999  9999999987 799999999998887776654433 66676654  346777777777766555443


Q ss_pred             HHhcCCCCCCCCccccHHHHHhc
Q psy450          426 IITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       426 ~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      .          ...||.+++.+|
T Consensus       218 ~----------~~~it~~~~~~a  230 (238)
T d1in4a2         218 K----------ADRINTDIVLKT  230 (238)
T ss_dssp             T----------CSSBCHHHHHHH
T ss_pred             c----------CCccCHHHHHHH
Confidence            2          346899999988

>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=99.83  E-value=1e-19  Score=168.63  Aligned_cols=210  Identities=18%  Similarity=0.222  Sum_probs=144.8

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHH
Q psy450          203 NVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENI  282 (478)
Q Consensus       203 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~  282 (478)
                      +.+|++++|++++++.|..++.+.... +..+.++||+||||||||++|+++|++++.++..++++....      ....
T Consensus         5 P~~~ddivGq~~~~~~L~~~i~~~~~~-~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~------~~~~   77 (239)
T d1ixsb2           5 PKTLDEYIGQERLKQKLRVYLEAAKAR-KEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK------PGDL   77 (239)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHHTTS-SSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCS------HHHH
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhc-CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCcccc------chhh
Confidence            458999999999999999998776432 333678999999999999999999999999999998765432      1112


Q ss_pred             HHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcC----------------CCCCCCeEEEEEcC
Q psy450          283 RNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG----------------VHTSQDVFILGATN  346 (478)
Q Consensus       283 ~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~----------------~~~~~~v~vI~ttn  346 (478)
                      ....... ....+++++||+|.+...             ....++..++.                ....+++++|++||
T Consensus        78 ~~~~~~~-~~~~~i~~iDe~~~~~~~-------------~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  143 (239)
T d1ixsb2          78 AAILANS-LEEGDILFIDEIHRLSRQ-------------AEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATT  143 (239)
T ss_dssp             HHHHHTT-CCTTCEEEEETGGGCCHH-------------HHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEES
T ss_pred             HHHHHhh-ccCCCeeeeecccccchh-------------HHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeecc
Confidence            2222222 223469999999998632             22223332221                01245688899999


Q ss_pred             CCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCC-CHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Q psy450          347 RVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDV-SLDSLVHHFPSQMSGADIYSICSNAWTRAIRR  425 (478)
Q Consensus       347 ~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r  425 (478)
                      ++....++.++  |+...+.+.. |+.+++..+++..+...++..+. .+..++..+ .| ..+...++++.+...+.  
T Consensus       144 ~~~~~~~~~l~--~~~~~~~~~~-~~~~~~~~i~~~~~~~~~i~~~~~~l~~ia~~s-~g-d~R~a~~~l~~~~~~a~--  216 (239)
T d1ixsb2         144 RPGLITAPLLS--RFGIVEHLEY-YTPEELAQGVMRDARLLGVRITEEAALEIGRRS-RG-TMRVAKRLFRRVRDFAQ--  216 (239)
T ss_dssp             CCSSCSCGGGG--GCSEEEECCC-CCHHHHHHHHHHHHGGGCCCBCHHHHHHHHHHT-TS-SHHHHHHHHHHHHHHHT--
T ss_pred             Ccccccchhhc--ccceeeEeec-cChhhhhHHHHHHHHHhCCccchHHHHHHHHHc-CC-CHHHHHHHHHHHHHHHH--
Confidence            99888888887  7888888886 78999999999888877655443 366667665 44 34444455444332211  


Q ss_pred             HHhcCCCCCCCCccccHHHHHhc
Q psy450          426 IITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       426 ~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                              ......||.+++.++
T Consensus       217 --------~~~~~~It~~~~~~~  231 (239)
T d1ixsb2         217 --------VAGEEVITRERALEA  231 (239)
T ss_dssp             --------TSCCSCBCHHHHHHH
T ss_pred             --------HhCCCCcCHHHHHHH
Confidence                    123557999999998

>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=99.83  E-value=4.1e-21  Score=180.51  Aligned_cols=135  Identities=19%  Similarity=0.291  Sum_probs=112.0

Q ss_pred             HHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-------------hhHhhhccccccccccccchhhh
Q psy450           17 SHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-------------YVYFKLCSFDSVNVKSNETKDQQ   83 (478)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-------------~~~~~l~~~d~~~~~~~~~~~~~   83 (478)
                      ..+.+.|.+.+.. .++.+|+ .|+.++||||||||+|.++..|             .++.+++.||++           
T Consensus        75 ~~l~~~~~~~~~~-~l~~~f~-~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~-----------  141 (265)
T d1r7ra3          75 PELLTMWFGESEA-NVREIFD-KARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGM-----------  141 (265)
T ss_dssp             HHHHTSCTTTHHH-HHHHHHH-HHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC-------------
T ss_pred             HHhhhccccchHH-HHHHHHH-HHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCc-----------
Confidence            4556677776665 8999999 9999999999999999999875             568889899854           


Q ss_pred             ccCCCcEEEEe-------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHH
Q psy450           84 CKQQHKKKLVL-------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDL  154 (478)
Q Consensus        84 ~~~~~~v~via-------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di  154 (478)
                       ..+.+|+|||       +|||++|  ||+++|+|+.|+.++|.+||+.++++.  .+..+.++ +.++..|+||+++||
T Consensus       142 -~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~--~~~~~~~l-~~la~~t~g~s~~di  217 (265)
T d1r7ra3         142 -STKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS--PVAKDVDL-EFLAKMTNGFSGADL  217 (265)
T ss_dssp             -----CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC------CCCC-HHHHHHHCSSCCHHH
T ss_pred             -CCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccC--CchhhhhH-HHHHhcCCCCCHHHH
Confidence             4455689999       9999998  999999999999999999999999876  55667787 999999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy450          155 TCLVRLSVKNKMLK  168 (478)
Q Consensus       155 ~~l~~~a~~~a~~~  168 (478)
                      ..+|++|...++++
T Consensus       218 ~~lv~~A~~~A~~~  231 (265)
T d1r7ra3         218 TEICQRACKLAIRE  231 (265)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999988754

>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=99.73  E-value=3.2e-17  Score=150.76  Aligned_cols=176  Identities=20%  Similarity=0.208  Sum_probs=125.4

Q ss_pred             CCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC-----CcEEEEechhhhhhh
Q psy450          200 SVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR-----MNFLAVKGPELLNKY  274 (478)
Q Consensus       200 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~-----~~~~~v~~~~l~~~~  274 (478)
                      .+.+.+++|++|++++++.|..++...      ...++||+||||+|||++|+++|++++     .+++++++++..+..
T Consensus        17 ky~P~~~~diig~~~~~~~l~~~i~~~------~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~   90 (231)
T d1iqpa2          17 KYRPQRLDDIVGQEHIVKRLKHYVKTG------SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGIN   90 (231)
T ss_dssp             HTCCCSTTTCCSCHHHHHHHHHHHHHT------CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHH
T ss_pred             HhCCCCHHHccCcHHHHHHHHHHHHcC------CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccchh
Confidence            344568999999999999998887543      245799999999999999999999874     467888876643321


Q ss_pred             hcchHHHHHHHH--HHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCC
Q psy450          275 IGQSEENIRNVF--LKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLD  352 (478)
Q Consensus       275 ~g~~~~~~~~~~--~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld  352 (478)
                      .  .........  .......+.|+++||+|.+..             .....|+..++.  ...++.+|++||.+..++
T Consensus        91 ~--~~~~~~~~~~~~~~~~~~~~iilide~d~~~~-------------~~~~~ll~~l~~--~~~~~~~i~~~n~~~~i~  153 (231)
T d1iqpa2          91 V--IREKVKEFARTKPIGGASFKIIFLDEADALTQ-------------DAQQALRRTMEM--FSSNVRFILSCNYSSKII  153 (231)
T ss_dssp             T--THHHHHHHHHSCCGGGCSCEEEEEETGGGSCH-------------HHHHHHHHHHHH--TTTTEEEEEEESCGGGSC
T ss_pred             H--HHHHHHHHHhhhhccCCCceEEeehhhhhcch-------------hHHHHHhhhccc--CCcceEEEeccCChhhch
Confidence            1  111111111  111234568999999998873             334556666553  345688999999999999


Q ss_pred             ccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCC-CCCCHHHHHHhc
Q psy450          353 PAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHF  402 (478)
Q Consensus       353 ~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~  402 (478)
                      +++++  |+ ..+.++. |+..+...+++..+++.++. ++..+..+++.+
T Consensus       154 ~~l~s--R~-~~i~~~~-~~~~~~~~~l~~~~~~e~i~i~~~~l~~I~~~~  200 (231)
T d1iqpa2         154 EPIQS--RC-AIFRFRP-LRDEDIAKRLRYIAENEGLELTEEGLQAILYIA  200 (231)
T ss_dssp             HHHHH--TE-EEEECCC-CCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHH
T ss_pred             HhHhC--cc-ccccccc-cchhhHHHHHHHHHHHhCCCCCHHHHHHHHHHc
Confidence            99998  88 4577775 78999999999988876653 223367777765

>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=99.69  E-value=4.8e-17  Score=149.10  Aligned_cols=211  Identities=15%  Similarity=0.116  Sum_probs=135.5

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC-----cEEEEechhhhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM-----NFLAVKGPELLNKYI  275 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~-----~~~~v~~~~l~~~~~  275 (478)
                      +.+.+++|++|++++++.|...+....      ..++||+||||+|||++|+++|++++.     .+...+.++..+...
T Consensus         8 yrP~~~~divg~~~~~~~L~~~i~~~~------~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~   81 (227)
T d1sxjc2           8 YRPETLDEVYGQNEVITTVRKFVDEGK------LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDV   81 (227)
T ss_dssp             TCCSSGGGCCSCHHHHHHHHHHHHTTC------CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHH
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHcCC------CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeee
Confidence            345689999999999999988765321      336999999999999999999998743     245555544322111


Q ss_pred             cchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccc
Q psy450          276 GQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAI  355 (478)
Q Consensus       276 g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l  355 (478)
                      ....................+++|||+|.+..             ...+.|+..++.  ......++.++|.+..+++++
T Consensus        82 ~~~~~~~~~~~~~~~~~~~kiiiiDe~d~~~~-------------~~~~~Ll~~le~--~~~~~~~~~~~~~~~~i~~~i  146 (227)
T d1sxjc2          82 VRNQIKDFASTRQIFSKGFKLIILDEADAMTN-------------AAQNALRRVIER--YTKNTRFCVLANYAHKLTPAL  146 (227)
T ss_dssp             HHTHHHHHHHBCCSSSCSCEEEEETTGGGSCH-------------HHHHHHHHHHHH--TTTTEEEEEEESCGGGSCHHH
T ss_pred             eecchhhccccccccCCCeEEEEEeccccchh-------------hHHHHHHHHhhh--cccceeeccccCcHHHhHHHH
Confidence            11111100111111223346999999999862             345666666664  245678888999999999999


Q ss_pred             cCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCC
Q psy450          356 LRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVK  434 (478)
Q Consensus       356 ~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~  434 (478)
                      ++  |+ ..+.+.. |+.++...++...++..++.-+ ..++.+++.+ .|    |++.++...     ......  ...
T Consensus       147 ~s--r~-~~i~~~~-~~~~~i~~~l~~I~~~e~i~i~~~~l~~i~~~s-~G----d~R~ain~L-----q~~~~~--~~~  210 (227)
T d1sxjc2         147 LS--QC-TRFRFQP-LPQEAIERRIANVLVHEKLKLSPNAEKALIELS-NG----DMRRVLNVL-----QSCKAT--LDN  210 (227)
T ss_dssp             HT--TS-EEEECCC-CCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHH-TT----CHHHHHHHT-----TTTTTT--TCS
T ss_pred             HH--HH-hhhcccc-ccccccccccccccccccccCCHHHHHHHHHHc-CC----cHHHHHHHH-----HHHHHh--cCC
Confidence            98  87 5667775 6888888899888776554322 2366777765 33    554443211     111100  112


Q ss_pred             CCCccccHHHHHhc
Q psy450          435 SAPVIVTMDDFLGA  448 (478)
Q Consensus       435 ~~~~~it~~d~~~A  448 (478)
                      .....||.+++.++
T Consensus       211 ~~~~~It~~~v~e~  224 (227)
T d1sxjc2         211 PDEDEISDDVIYEC  224 (227)
T ss_dssp             SSCCCBCHHHHHHH
T ss_pred             CCCCeeCHHHHHHH
Confidence            34567899999887

>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=99.68  E-value=6.5e-16  Score=143.71  Aligned_cols=194  Identities=20%  Similarity=0.251  Sum_probs=124.2

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhh----------hCCC-CCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNR----------TSGL-KRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPE  269 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~----------~~~~-~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~  269 (478)
                      +.+.+|++++|+++.+++|...+.....          ..+. ..+++||+||||||||++|+++|++++.+++.++.++
T Consensus         8 y~P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~   87 (253)
T d1sxja2           8 YAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASD   87 (253)
T ss_dssp             TCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTS
T ss_pred             cCCCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhcccccc
Confidence            4456899999999999999998865421          1111 2568999999999999999999999999999999876


Q ss_pred             hhhhhhcch--HHHH----------HHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCC
Q psy450          270 LLNKYIGQS--EENI----------RNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQ  337 (478)
Q Consensus       270 l~~~~~g~~--~~~~----------~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  337 (478)
                      ..+......  ...+          ...........+.++++||+|.+....          +.....++.....  ...
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~----------~~~~~~~~~~~~~--~~~  155 (253)
T d1sxja2          88 VRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGD----------RGGVGQLAQFCRK--TST  155 (253)
T ss_dssp             CCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTS----------TTHHHHHHHHHHH--CSS
T ss_pred             chhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccch----------hhhhHHHhhhhcc--ccc
Confidence            543211100  0000          000001122346799999999987532          1223334433332  223


Q ss_pred             CeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc--CCCCCCCCHHHHHHhcCCCCCHHHHHHHH
Q psy450          338 DVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK--FKLSDDVSLDSLVHHFPSQMSGADIYSIC  415 (478)
Q Consensus       338 ~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~--~~~~~~~~~~~la~~~~~~~sg~di~~l~  415 (478)
                      .++++++++....++ .++   |+...+.|+. |+.+++..+++.++.+  +.++++ .++.++..+ .    +|++.++
T Consensus       156 ~ii~i~~~~~~~~~~-~l~---~~~~~i~f~~-~~~~~i~~~l~~i~~~e~i~i~~~-~l~~i~~~s-~----GDiR~ai  224 (253)
T d1sxja2         156 PLILICNERNLPKMR-PFD---RVCLDIQFRR-PDANSIKSRLMTIAIREKFKLDPN-VIDRLIQTT-R----GDIRQVI  224 (253)
T ss_dssp             CEEEEESCTTSSTTG-GGT---TTSEEEECCC-CCHHHHHHHHHHHHHHHTCCCCTT-HHHHHHHHT-T----TCHHHHH
T ss_pred             ccccccccccccccc-ccc---ceeeeeeccc-cchhHHHHHHHHHHHHhCCCCCHH-HHHHHHHhC-C----CcHHHHH
Confidence            455555555544444 444   5568899986 7899999999988864  444443 378888765 3    4887776


Q ss_pred             HH
Q psy450          416 SN  417 (478)
Q Consensus       416 ~~  417 (478)
                      ..
T Consensus       225 ~~  226 (253)
T d1sxja2         225 NL  226 (253)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>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=99.68  E-value=8e-16  Score=141.99  Aligned_cols=201  Identities=18%  Similarity=0.195  Sum_probs=137.4

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCc--------------------
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMN--------------------  261 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~--------------------  261 (478)
                      .+.+|++++|++++++.|...+..     +..|+++||+||||+|||++|+++++.++..                    
T Consensus         7 rP~~~~dlig~~~~~~~L~~~i~~-----~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~   81 (239)
T d1njfa_           7 RPQTFADVVGQEHVLTALANGLSL-----GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQG   81 (239)
T ss_dssp             CCSSGGGSCSCHHHHHHHHHHHHT-----TCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHT
T ss_pred             CCCCHHHccChHHHHHHHHHHHHc-----CCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcC
Confidence            346899999999999999887653     2336779999999999999999999987432                    


Q ss_pred             ----EEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC
Q psy450          262 ----FLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV  333 (478)
Q Consensus       262 ----~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~  333 (478)
                          ++.++.++.      .....++.++..+..    +...|++|||+|.+.             ....+.|+..++. 
T Consensus        82 ~~~~~~~~~~~~~------~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~-------------~~~q~~Llk~lE~-  141 (239)
T d1njfa_          82 RFVDLIEIDAASR------TKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLS-------------RHSFNALLKTLEE-  141 (239)
T ss_dssp             CCTTEEEEETTCS------SSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSC-------------HHHHHHHHHHHHS-
T ss_pred             CCCeEEEecchhc------CCHHHHHHHHHHHHhccccCCCEEEEEECcccCC-------------HHHHHHHHHHHhc-
Confidence                344443221      122345566655432    334699999999986             3456778888874 


Q ss_pred             CCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHH
Q psy450          334 HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIY  412 (478)
Q Consensus       334 ~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~  412 (478)
                       ...++.+|++||.++.+.+++++  |+ ..+.++. ++.++...++....+..+..-+ ..++.++..+ .|    |++
T Consensus       142 -~~~~~~~il~tn~~~~i~~~i~S--Rc-~~i~~~~-~~~~~i~~~l~~i~~~e~~~~~~~~l~~i~~~s-~G----d~R  211 (239)
T d1njfa_         142 -PPEHVKFLLATTDPQKLPVTILS--RC-LQFHLKA-LDVEQIRHQLEHILNEEHIAHEPRALQLLARAA-EG----SLR  211 (239)
T ss_dssp             -CCTTEEEEEEESCGGGSCHHHHT--TS-EEEECCC-CCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHT-TT----CHH
T ss_pred             -CCCCeEEEEEcCCccccChhHhh--hh-ccccccc-CcHHHhhhHHHHHHhhhccCCCHHHHHHHHHHc-CC----CHH
Confidence             35678889999999999999999  98 5677775 6788887888777654443322 2366676654 33    555


Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          413 SICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       413 ~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      .+++.. ..++...          ...|+.+|+.++
T Consensus       212 ~ain~l-~~~~~~~----------~~~I~~~~v~~~  236 (239)
T d1njfa_         212 DALSLT-DQAIASG----------DGQVSTQAVSAM  236 (239)
T ss_dssp             HHHHHH-HHHHHHT----------TTSBCHHHHHHH
T ss_pred             HHHHHH-HHHHHhC----------CCCcCHHHHHHH
Confidence            444322 1222221          346899998876

>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=99.63  E-value=3.5e-15  Score=134.69  Aligned_cols=196  Identities=15%  Similarity=0.246  Sum_probs=127.6

Q ss_pred             CCCCCccccc-C--cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhhh
Q psy450          201 VPNVSWEDIG-G--LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNKY  274 (478)
Q Consensus       201 ~~~~~~~~i~-g--~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~~  274 (478)
                      .|+.+|++++ |  .+.+...+.+.+.++    +...+.++||||+|||||+|++++++++   +..+++++..++....
T Consensus         4 n~~~tFdnF~vg~~N~~a~~~~~~~~~~~----~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~   79 (213)
T d1l8qa2           4 NPKYTLENFIVGEGNRLAYEVVKEALENL----GSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAM   79 (213)
T ss_dssp             CTTCCSSSCCCCTTTHHHHHHHHHHHHTT----TTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHH
T ss_pred             CCCCChhhccCCCcHHHHHHHHHHHHhCc----CCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHH
Confidence            4778899865 4  444445555554433    2223459999999999999999999987   5678888887776543


Q ss_pred             hcchHH-HHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCC---
Q psy450          275 IGQSEE-NIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDL---  350 (478)
Q Consensus       275 ~g~~~~-~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~---  350 (478)
                      ...... ....++.....  ..+|+|||+|.+.++.           .....+...++.....++.+|+++...|..   
T Consensus        80 ~~~~~~~~~~~~~~~~~~--~dll~iDDi~~i~~~~-----------~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~  146 (213)
T d1l8qa2          80 VEHLKKGTINEFRNMYKS--VDLLLLDDVQFLSGKE-----------RTQIEFFHIFNTLYLLEKQIILASDRHPQKLDG  146 (213)
T ss_dssp             HHHHHHTCHHHHHHHHHT--CSEEEEECGGGGTTCH-----------HHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTT
T ss_pred             HHHHHccchhhHHHHHhh--ccchhhhhhhhhcCch-----------HHHHHHHHHHHHHhhccceEEEecCCcchhccc
Confidence            322211 12233333333  3699999999997542           233334444444445566777777777754   


Q ss_pred             CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHH
Q psy450          351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNA  418 (478)
Q Consensus       351 ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a  418 (478)
                      +.+.+.+  |+...+.+.++|+.++|.++++.++...++.-+ ..++.|++++ .  +.+++..+++.-
T Consensus       147 ~~~dL~S--RL~~g~~~~i~p~d~~~~~iL~~~a~~rgl~l~~~v~~yl~~~~-~--~~R~L~~~l~~l  210 (213)
T d1l8qa2         147 VSDRLVS--RFEGGILVEIELDNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-K--NVREIEGKIKLI  210 (213)
T ss_dssp             SCHHHHH--HHHTSEEEECCCCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-S--SHHHHHHHHHHH
T ss_pred             cchHHHH--HhhCceEEEECCCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHhc-C--cHHHHHHHHHHh
Confidence            4577888  888777776666788999999888876554432 2277777775 2  467777766543

>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=99.62  E-value=3.4e-15  Score=138.55  Aligned_cols=189  Identities=15%  Similarity=0.114  Sum_probs=118.3

Q ss_pred             CCCCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC---cEEEEechhhh----
Q psy450          199 PSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM---NFLAVKGPELL----  271 (478)
Q Consensus       199 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~---~~~~v~~~~l~----  271 (478)
                      ..+.+..+++++|.+++++.|+..+..     +..+.++||+||||||||++|+++|+++..   ....++.....    
T Consensus         3 eky~P~~~~diig~~~~~~~L~~~~~~-----~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~   77 (252)
T d1sxje2           3 DKYRPKSLNALSHNEELTNFLKSLSDQ-----PRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASN   77 (252)
T ss_dssp             TTTCCCSGGGCCSCHHHHHHHHTTTTC-----TTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC-------------
T ss_pred             cccCCCCHHHccCcHHHHHHHHHHHHc-----CCCCCeEEEECCCCCCHHHHHHHHHHhhcCcccccccccccccccccc
Confidence            345566899999999999988765432     222557999999999999999999998621   11111110000    


Q ss_pred             ------------------hhhhcchHHHHHHHHHHh--------------HhCCCeEEEEcCCccccCCCCCCCCCchhH
Q psy450          272 ------------------NKYIGQSEENIRNVFLKA--------------RSAAPCVVFFDELDSLAPRRGQEDQSSGVM  319 (478)
Q Consensus       272 ------------------~~~~g~~~~~~~~~~~~a--------------~~~~p~il~iDeid~l~~~~~~~~~~~~~~  319 (478)
                                        ..................              ......+++|||+|.+..            
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~------------  145 (252)
T d1sxje2          78 RKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTK------------  145 (252)
T ss_dssp             -----CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCH------------
T ss_pred             chhhhhhccCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEecccccccc------------
Confidence                              000000111111111111              112245999999999862            


Q ss_pred             HHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCC--CCCCCHHH
Q psy450          320 DRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKL--SDDVSLDS  397 (478)
Q Consensus       320 ~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~--~~~~~~~~  397 (478)
                       ...+.++..++.  ...++.+|++||.++.+++++++  || ..++++. |+.++..++++..++..++  ..+.-+..
T Consensus       146 -~~~~~l~~~~e~--~~~~~~~Il~tn~~~~i~~~l~s--R~-~~i~~~~-~~~~~~~~~l~~i~~~e~~~~~~~~~l~~  218 (252)
T d1sxje2         146 -DAQAALRRTMEK--YSKNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPA-PSDSEISTILSDVVTNERIQLETKDILKR  218 (252)
T ss_dssp             -HHHHHHHHHHHH--STTTEEEEEEESCSCSSCHHHHT--TS-EEEECCC-CCHHHHHHHHHHHHHHHTCEECCSHHHHH
T ss_pred             -ccchhhhccccc--ccccccceeeeccccchhhhhhc--ch-heeeecc-cchhhHHHHHHHHHHHcCCCCCcHHHHHH
Confidence             344556666653  34567889999999999999998  99 5788875 7889999999887766443  33333566


Q ss_pred             HHHhcCCCCCHHHHHHHHH
Q psy450          398 LVHHFPSQMSGADIYSICS  416 (478)
Q Consensus       398 la~~~~~~~sg~di~~l~~  416 (478)
                      ++..+ .|    |++.++.
T Consensus       219 i~~~s-~G----d~R~ai~  232 (252)
T d1sxje2         219 IAQAS-NG----NLRVSLL  232 (252)
T ss_dssp             HHHHH-TT----CHHHHHH
T ss_pred             HHHHc-CC----cHHHHHH
Confidence            77665 32    6665543

>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=99.62  E-value=4.6e-15  Score=139.74  Aligned_cols=228  Identities=12%  Similarity=-0.022  Sum_probs=143.0

Q ss_pred             CCcccccCcHHHHHHHHHHHHhhhhhCCCC---CceEEEeCCCCChHHHHHHHHHHHhC---------CcEEEEechhhh
Q psy450          204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLK---RSGLLLYGPPGTGKTLIAKAVATECR---------MNFLAVKGPELL  271 (478)
Q Consensus       204 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~---~~~iLl~Gp~GtGKT~la~~la~~~~---------~~~~~v~~~~l~  271 (478)
                      ...+.+.|.+...+.|...+.........+   ...++|+||||||||++++++++.+.         ..+.++++....
T Consensus        13 ~~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   92 (287)
T d1w5sa2          13 YIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAP   92 (287)
T ss_dssp             CCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCC
T ss_pred             cCCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeecccccc
Confidence            344678898899999888776554332211   23467899999999999999998862         345555654332


Q ss_pred             hh----------------hhcchHHHHHHHHHHh-H-hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCC
Q psy450          272 NK----------------YIGQSEENIRNVFLKA-R-SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV  333 (478)
Q Consensus       272 ~~----------------~~g~~~~~~~~~~~~a-~-~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~  333 (478)
                      ..                ..+.....+...+... . ...+.++++||+|.+......    .......+..+...+...
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~----~~~~~~~l~~l~~~l~~~  168 (287)
T d1w5sa2          93 NLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRI----AAEDLYTLLRVHEEIPSR  168 (287)
T ss_dssp             SHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTS----CHHHHHHHHTHHHHSCCT
T ss_pred             chhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEecccccc----chhHHHHHHHHHHhcchh
Confidence            11                1233333333333332 2 345578889999999754321    111122333444455555


Q ss_pred             CCCCCeEEEEEcCCCCC------CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCC---HHHHHHhcC-
Q psy450          334 HTSQDVFILGATNRVDL------LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVS---LDSLVHHFP-  403 (478)
Q Consensus       334 ~~~~~v~vI~ttn~~~~------ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~---~~~la~~~~-  403 (478)
                      .....+.+|+.+|.++.      ..+.+.+  ||...++++. ++.++..+|++..++........+   +..+++.+. 
T Consensus       169 ~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~--r~~~~i~f~~-y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~~~  245 (287)
T d1w5sa2         169 DGVNRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPA-YKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGE  245 (287)
T ss_dssp             TSCCBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCC-CCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCG
T ss_pred             hcccceeEEeecccHHHHHHHHhhccchhc--ccceeeeccC-CcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHHHhc
Confidence            55667778877776643      3456677  9999999986 799999999998876432222222   556665541 


Q ss_pred             ---CCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          404 ---SQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       404 ---~~~sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                         ..-..+...++|+.|+..|..+.          ...||.+|+.+|
T Consensus       246 ~~~~~gd~R~ai~~l~~a~~~A~~~~----------~~~It~~~V~~A  283 (287)
T d1w5sa2         246 DKGGDGSARRAIVALKMACEMAEAMG----------RDSLSEDLVRKA  283 (287)
T ss_dssp             GGTSCCCHHHHHHHHHHHHHHHHHTT----------CSSCCHHHHHHH
T ss_pred             cccCCCCHHHHHHHHHHHHHHHHHcC----------CCCCCHHHHHHH
Confidence               01234555677888877666542          457999999999

>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=99.62  E-value=4.2e-15  Score=136.65  Aligned_cols=209  Identities=16%  Similarity=0.141  Sum_probs=134.0

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh------CCcEEEEechhhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC------RMNFLAVKGPELLNKY  274 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~------~~~~~~v~~~~l~~~~  274 (478)
                      +.+.++++++|++++++.|+..+...      ...+++|+||||||||++++++++++      ....+.++.+......
T Consensus         6 y~P~~~~diig~~~~~~~l~~~i~~~------~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~   79 (237)
T d1sxjd2           6 YRPKNLDEVTAQDHAVTVLKKTLKSA------NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGIS   79 (237)
T ss_dssp             TCCSSTTTCCSCCTTHHHHHHHTTCT------TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHH
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHcC------CCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccch
Confidence            45678999999999998888765422      23469999999999999999999986      4566666654332111


Q ss_pred             -hcchHHHHH---------HHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEE
Q psy450          275 -IGQSEENIR---------NVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGA  344 (478)
Q Consensus       275 -~g~~~~~~~---------~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~t  344 (478)
                       .....+...         ............|++|||+|.+..             ...+.++..++.  ......+|.+
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~-------------~~~~~l~~~~~~--~~~~~~~i~~  144 (237)
T d1sxjd2          80 IVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTA-------------DAQSALRRTMET--YSGVTRFCLI  144 (237)
T ss_dssp             HHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCH-------------HHHHHHHHHHHH--TTTTEEEEEE
T ss_pred             HHHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCH-------------HHHHHHhhcccc--cccccccccc
Confidence             111111100         011111223345999999999973             233444444442  2345677888


Q ss_pred             cCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHH---HHHHHH
Q psy450          345 TNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSI---CSNAWT  420 (478)
Q Consensus       345 tn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l---~~~a~~  420 (478)
                      ++....+.+++++  || ..+.|.. |+.++...+++..+.+.++.-+ ..+..+++.+ .|    |++.+   ++.++.
T Consensus       145 ~~~~~~~~~~l~s--r~-~~i~f~~-~~~~~~~~~L~~i~~~e~i~i~~~~l~~ia~~s-~g----d~R~ai~~L~~~~~  215 (237)
T d1sxjd2         145 CNYVTRIIDPLAS--QC-SKFRFKA-LDASNAIDRLRFISEQENVKCDDGVLERILDIS-AG----DLRRGITLLQSASK  215 (237)
T ss_dssp             ESCGGGSCHHHHH--HS-EEEECCC-CCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHT-SS----CHHHHHHHHHHTHH
T ss_pred             ccccccccccccc--hh-hhhcccc-ccccccchhhhhhhhhhcCcCCHHHHHHHHHHc-CC----CHHHHHHHHHHHHH
Confidence            8888889999998  88 5778875 7999999999988876665322 2267777765 33    55544   444433


Q ss_pred             HHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          421 RAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       421 ~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      .+....         ....||.+++.++
T Consensus       216 ~~~~~~---------~~~~It~~~i~e~  234 (237)
T d1sxjd2         216 GAQYLG---------DGKNITSTQVEEL  234 (237)
T ss_dssp             HHHHHC---------SCCCCCHHHHHHH
T ss_pred             hchhcC---------CCCccCHHHHHHh
Confidence            222221         2446899999876

>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=99.62  E-value=1.1e-14  Score=136.35  Aligned_cols=223  Identities=14%  Similarity=0.069  Sum_probs=142.2

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEechhhhhh----
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKGPELLNK----  273 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~~~l~~~----  273 (478)
                      |.+..+.++|.+..++.+..++......++..+.+++|+||||||||++++++++.+    +..++.+++......    
T Consensus        11 ~~y~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   90 (276)
T d1fnna2          11 PSYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAII   90 (276)
T ss_dssp             TTCCCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhh
Confidence            445556789999999999998887776677778899999999999999999999987    355677765332111    


Q ss_pred             ------------hhcchHHH-HHHHHHHh-HhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCe
Q psy450          274 ------------YIGQSEEN-IRNVFLKA-RSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDV  339 (478)
Q Consensus       274 ------------~~g~~~~~-~~~~~~~a-~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v  339 (478)
                                  ..+..... ...+.... ....+.++++|++|.+....          ......++..+.. ....++
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~----------~~~~~~~~~~~~~-~~~~~~  159 (276)
T d1fnna2          91 GEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDI----------LSTFIRLGQEADK-LGAFRI  159 (276)
T ss_dssp             HHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHH----------HHHHHHHTTCHHH-HSSCCE
T ss_pred             hhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhh----------hhhHHHHHhcccc-ccccce
Confidence                        11222222 22333333 23456788899998886211          1122222222111 234567


Q ss_pred             EEEEEcCCC---CCCCccccCCCCCC-eEEEeCCCCCHHHHHHHHHHHHhcCCCC---CCCCHHHHHHhcC-----CCC-
Q psy450          340 FILGATNRV---DLLDPAILRPGRLD-KSLYVGLYEDRISQLGVLKAVVRKFKLS---DDVSLDSLVHHFP-----SQM-  406 (478)
Q Consensus       340 ~vI~ttn~~---~~ld~~l~~~~Rf~-~~i~~~~pp~~~~r~~il~~~~~~~~~~---~~~~~~~la~~~~-----~~~-  406 (478)
                      .+|++++..   +.+++.+.+  |+. ..+.++. ++.+++.+|++.+++.....   .+..++.++..+.     ..+ 
T Consensus       160 ~~i~~~~~~~~~~~~~~~~~~--r~~~~~i~~~~-~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~~~~~~  236 (276)
T d1fnna2         160 ALVIVGHNDAVLNNLDPSTRG--IMGKYVIRFSP-YTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNR  236 (276)
T ss_dssp             EEEEEESSTHHHHTSCHHHHH--HHTTCEEECCC-CBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTS
T ss_pred             EEeecCCchhhhhhcchhhhh--hhcchhccccc-hhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhhhhhcC
Confidence            888888875   457777776  543 4577875 79999999998877643222   1222455555431     111 


Q ss_pred             -CHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          407 -SGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       407 -sg~di~~l~~~a~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                       +.+.+.++|+.|+..|..+.          ...||.+|+.+|
T Consensus       237 G~~R~a~~ll~~a~~~A~~~~----------~~~I~~edv~~A  269 (276)
T d1fnna2         237 GDARLAIDILYRSAYAAQQNG----------RKHIAPEDVRKS  269 (276)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTT----------CSSCCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcC----------CCCcCHHHHHHH
Confidence             34566677888876666553          457999999999

>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=99.61  E-value=1.8e-15  Score=138.17  Aligned_cols=200  Identities=16%  Similarity=0.147  Sum_probs=134.6

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC-----cEEEEechhhhhhhh
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM-----NFLAVKGPELLNKYI  275 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~-----~~~~v~~~~l~~~~~  275 (478)
                      +.+.+++|++|++++++.|+..+...      ...++||+||||||||++|+.+|++++.     .++.+++++..+   
T Consensus         9 yrP~~~~d~ig~~~~~~~L~~~~~~~------~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~---   79 (224)
T d1sxjb2           9 YRPQVLSDIVGNKETIDRLQQIAKDG------NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRG---   79 (224)
T ss_dssp             TCCSSGGGCCSCTHHHHHHHHHHHSC------CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCS---
T ss_pred             hCCCCHHHhcCCHHHHHHHHHHHHcC------CCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCC---
Confidence            45678999999999999998876432      1346999999999999999999998864     467777655322   


Q ss_pred             cchHHHHHHHHHHhH-------hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC
Q psy450          276 GQSEENIRNVFLKAR-------SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV  348 (478)
Q Consensus       276 g~~~~~~~~~~~~a~-------~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~  348 (478)
                         ...+...+....       ...+.++++||+|.+..             ...+.++..++.  ......++.+++..
T Consensus        80 ---~~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~-------------~~~~~ll~~~e~--~~~~~~~i~~~~~~  141 (224)
T d1sxjb2          80 ---IDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA-------------GAQQALRRTMEL--YSNSTRFAFACNQS  141 (224)
T ss_dssp             ---HHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCH-------------HHHHTTHHHHHH--TTTTEEEEEEESCG
T ss_pred             ---ceehhhHHHHHHHhhccCCCcceEEEEEecccccch-------------hHHHHHhhhccc--cccceeeeeccCch
Confidence               122222222211       12346999999999973             344556666553  34567788889999


Q ss_pred             CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCC-CCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHH
Q psy450          349 DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDD-VSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII  427 (478)
Q Consensus       349 ~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~  427 (478)
                      ..+.+++++  |+ ..+.++. |+.++...++...+++.++.-+ ..+..++..+ .    +|++.++...-.. ...  
T Consensus       142 ~~i~~~l~s--r~-~~i~~~~-~~~~~i~~~l~~i~~~e~~~i~~~~l~~I~~~s-~----Gd~R~ai~~Lq~~-~~~--  209 (224)
T d1sxjb2         142 NKIIEPLQS--QC-AILRYSK-LSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTA-E----GDMRQAINNLQST-VAG--  209 (224)
T ss_dssp             GGSCHHHHT--TS-EEEECCC-CCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHH-T----TCHHHHHHHHHHH-HHH--
T ss_pred             hhhhhHHHH--HH-HHhhhcc-cchhhhHHHHHHHHHhcccCCCHHHHHHHHHHc-C----CcHHHHHHHHHHH-HHc--
Confidence            999999999  98 5688885 7899999999888765554322 2266777765 2    3555544433211 111  


Q ss_pred             hcCCCCCCCCccccHHHHHhc
Q psy450          428 TSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       428 ~~~~~~~~~~~~it~~d~~~A  448 (478)
                               ...+|.+++.+.
T Consensus       210 ---------~~~i~~~~i~~~  221 (224)
T d1sxjb2         210 ---------HGLVNADNVFKI  221 (224)
T ss_dssp             ---------HSSBCHHHHHHH
T ss_pred             ---------CCCcCHHHHHHH
Confidence                     225777777765

>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=99.59  E-value=1e-14  Score=135.04  Aligned_cols=220  Identities=16%  Similarity=0.225  Sum_probs=146.5

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhhh--
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELLN--  272 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~~--  272 (478)
                      .++.++|.++...++.+.+....      .++++|+||||+|||++++.+|...          +..++.++...+..  
T Consensus        16 ~ld~~igRd~Ei~~l~~iL~r~~------k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~   89 (268)
T d1r6bx2          16 GIDPLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGT   89 (268)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCC
T ss_pred             CCCcccChHHHHHHHHHHHhcCc------cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccC
Confidence            35678899988888877663222      5679999999999999999999864          56799999988875  


Q ss_pred             hhhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC----
Q psy450          273 KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV----  348 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~----  348 (478)
                      +|.|+-+..+..++..+......|+||||++.+.+...+++.+    .    .+-..+...-..+.+.+|++|+.-    
T Consensus        90 ~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~----~----d~a~~Lkp~L~rg~i~vIgatT~eey~~  161 (268)
T d1r6bx2          90 KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQ----V----DAANLIKPLLSSGKIRVIGSTTYQEFSN  161 (268)
T ss_dssp             CCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCH----H----HHHHHHSSCSSSCCCEEEEEECHHHHHC
T ss_pred             ccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCcc----c----cHHHHhhHHHhCCCCeEEEeCCHHHHHH
Confidence            5789999999999999988888999999999998653322211    1    122233444456788899988753    


Q ss_pred             -CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc------CCCCCCC--CHHHHHHh-cCCCCCHHHHHHHHHHH
Q psy450          349 -DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK------FKLSDDV--SLDSLVHH-FPSQMSGADIYSICSNA  418 (478)
Q Consensus       349 -~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~------~~~~~~~--~~~~la~~-~~~~~sg~di~~l~~~a  418 (478)
                       ..-|++|.|  || ..|.+.- |+.++-..|++.....      +.++++.  ..-.++.+ .++.+-++.--.++.+|
T Consensus       162 ~~e~d~al~r--rF-~~I~V~E-ps~e~t~~IL~~~~~~~e~~h~v~~~~~al~~~v~ls~ryi~~~~~PdKAIdllDea  237 (268)
T d1r6bx2         162 IFEKDRALAR--RF-QKIDITE-PSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEA  237 (268)
T ss_dssp             CCCCTTSSGG--GE-EEEECCC-CCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHHHHH
T ss_pred             HHhhcHHHHh--hh-cccccCC-CCHHHHHHHHHHhhHHHhccCCEEeChHHHHHHHHHHHhhccCCCCCcHHHHHHHHH
Confidence             245889998  88 5777875 7899888999765432      2333221  02222332 34444444555577777


Q ss_pred             HHHHHHHHHhcCCCCCCCCccccHHHHHhc
Q psy450          419 WTRAIRRIITSAPQVKSAPVIVTMDDFLGA  448 (478)
Q Consensus       419 ~~~a~~r~~~~~~~~~~~~~~it~~d~~~A  448 (478)
                      +..+  +....    ......+..+|+.+.
T Consensus       238 ~a~~--~~~~~----~~~~~~i~~~di~~~  261 (268)
T d1r6bx2         238 GARA--RLMPV----SKRKKTVNVADIESV  261 (268)
T ss_dssp             HHHH--HHSSS----CCCCCSCCHHHHHHH
T ss_pred             HHHH--Hhhcc----ccCcccCCHHHHHHH
Confidence            6433  22111    123445888888776

>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=99.59  E-value=8.2e-16  Score=149.55  Aligned_cols=194  Identities=15%  Similarity=0.081  Sum_probs=125.2

Q ss_pred             cHHHHHHHHHHHHhhhhhCCCC-CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcchHHHHHHHHHHhH
Q psy450          212 LSKLKAEILSTFRGVNRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR  290 (478)
Q Consensus       212 ~~~~k~~l~~~~~~~~~~~~~~-~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~  290 (478)
                      ++.++..+.+++....  .|.+ +++++|+||||||||++|+++|+.++.+++++++++..+.+            .-..
T Consensus       133 ~~~~~~~i~~~l~~~~--~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s~~rs~~------------~l~~  198 (362)
T d1svma_         133 LPKMDSVVYDFLKCMV--YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNF------------ELGV  198 (362)
T ss_dssp             STTHHHHHHHHHHHHH--HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHH------------HHGG
T ss_pred             ccchHHHHHHHHHHHH--hCCCCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECcchhhHH------------HHHh
Confidence            3444555555544432  2444 67899999999999999999999999999999988765442            1122


Q ss_pred             hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCC-------CC-----CeEEEEEcCCCCCCCccccCC
Q psy450          291 SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT-------SQ-----DVFILGATNRVDLLDPAILRP  358 (478)
Q Consensus       291 ~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~-------~~-----~v~vI~ttn~~~~ld~~l~~~  358 (478)
                      ...+.+.++|+++.....+....  ....-.-+..+...++|...       ..     ...+|+|||.   ++.++.++
T Consensus       199 ~~~~~~~l~d~~~~~~~~~~~~~--~~~~~DeiD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~---~~~~~~r~  273 (362)
T d1svma_         199 AIDQFLVVFEDVKGTGGESRDLP--SGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNE---YSVPKTLQ  273 (362)
T ss_dssp             GTTCSCEEETTCCCSTTTTTTCC--CCSHHHHHHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECS---CCCCHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhccCCC--CeEEEehHhhcccccCCcchhhhhhhhhchhhhccCCceeeccc---cccccccc
Confidence            23345667777776654432211  11111223344444454311       00     1237889996   45566778


Q ss_pred             CCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHH
Q psy450          359 GRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII  427 (478)
Q Consensus       359 ~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~~a~~~a~~r~~  427 (478)
                      +||+..+++..|+.......+++.++++..+.  .+.+.++..+ .+++|+|+.++++.+...+.++..
T Consensus       274 ~Rf~~~i~~~~~~~~~~~~~~l~~i~~~~~l~--~~~~~L~~li-~~~s~~D~~~~i~~~~~~~~~~l~  339 (362)
T d1svma_         274 ARFVKQIDFRPKDYLKHCLERSEFLLEKRIIQ--SGIALLLMLI-WYRPVAEFAQSIQSRIVEWKERLD  339 (362)
T ss_dssp             TTEEEEEECCCCHHHHHHHHTCTHHHHTTCTT--CHHHHHHHHH-HHSCGGGSCGGGHHHHHHHHHHHH
T ss_pred             ccCceEEeecCCCcHHHHHHHHHHHhcccCCC--CCHHHHHHHc-cCCCHHHHHHHHHHHHHHHHHHHh
Confidence            99999999987554444456667777766654  3356666655 588999999999999888877763

>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=99.56  E-value=1e-14  Score=139.48  Aligned_cols=202  Identities=18%  Similarity=0.279  Sum_probs=137.4

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCC--CCCc-eEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh--------
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSG--LKRS-GLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK--------  273 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~--~~~~-~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~--------  273 (478)
                      .++|++++++.+...+........  .+|. .+||+||+|+|||.+|+.+|+.+   +.+++.++++++...        
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            578999999999888776643222  2244 67889999999999999999998   678999998776532        


Q ss_pred             ----hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCeE
Q psy450          274 ----YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDVF  340 (478)
Q Consensus       274 ----~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~  340 (478)
                          |.|..+.  ..+....+.+..+|++|||+|+..             ..+++.|+..++.-.         +..+.+
T Consensus       104 ~~~gyvG~~~~--~~l~~~~~~~p~~Vvl~DEieK~~-------------~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i  168 (315)
T d1qvra3         104 APPGYVGYEEG--GQLTEAVRRRPYSVILFDEIEKAH-------------PDVFNILLQILDDGRLTDSHGRTVDFRNTV  168 (315)
T ss_dssp             --------------CHHHHHHHCSSEEEEESSGGGSC-------------HHHHHHHHHHHTTTEECCSSSCCEECTTEE
T ss_pred             CCCCCcCcccC--ChHHHHHHhCCCcEEEEehHhhcC-------------HHHHHHHHHHhccCceeCCCCcEecCcceE
Confidence                2332221  123334455666999999999987             356677777665421         134689


Q ss_pred             EEEEcCC--------------------------CCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhc-------C
Q psy450          341 ILGATNR--------------------------VDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRK-------F  387 (478)
Q Consensus       341 vI~ttn~--------------------------~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~-------~  387 (478)
                      +|+|||-                          ...+.|.++.  ||+..+.|.. .+.++..+|+...+..       .
T Consensus       169 ~i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~Ii~F~~-L~~~~~~~I~~~~l~~l~~rl~~~  245 (315)
T d1qvra3         169 IILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRP-LTKEQIRQIVEIQLSYLRARLAEK  245 (315)
T ss_dssp             EEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCC-CCHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             EEEecccChHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHh--cCCeeeeccc-hhhhhhHHHHHHHHHHHHHHHHhc
Confidence            9999994                          2457888888  9999988874 7888888887654432       2


Q ss_pred             CCCC---CCCHHHHHHh-cCCCCCHHHHHHHHHHHHHHHHHHHH
Q psy450          388 KLSD---DVSLDSLVHH-FPSQMSGADIYSICSNAWTRAIRRII  427 (478)
Q Consensus       388 ~~~~---~~~~~~la~~-~~~~~sg~di~~l~~~a~~~a~~r~~  427 (478)
                      .+.-   +.-.+.|+++ +...|-++.++.+++......+.+.+
T Consensus       246 ~i~l~i~~~~~~~L~~~~y~~~~GAR~L~r~Ie~~i~~~La~~i  289 (315)
T d1qvra3         246 RISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKI  289 (315)
T ss_dssp             TCEEEECHHHHHHHHHHHCBTTTBTSTHHHHHHHHTHHHHHHHH
T ss_pred             cccccccHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHHHH
Confidence            2211   1126667765 44456667888888887777776654

>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=99.56  E-value=3.1e-14  Score=136.22  Aligned_cols=203  Identities=16%  Similarity=0.232  Sum_probs=137.4

Q ss_pred             ccccCcHHHHHHHHHHHHhhhhhC---CCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh----------
Q psy450          207 EDIGGLSKLKAEILSTFRGVNRTS---GLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK----------  273 (478)
Q Consensus       207 ~~i~g~~~~k~~l~~~~~~~~~~~---~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~----------  273 (478)
                      ..++|++++++.+...+.......   ..+...+||+||||+|||.+|+++|+.++.+++.++++++...          
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            357999999999998887654322   2223468999999999999999999999999999999887532          


Q ss_pred             --hhcchHHHHHHHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCC---------CCCCeEEE
Q psy450          274 --YIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH---------TSQDVFIL  342 (478)
Q Consensus       274 --~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~vI  342 (478)
                        |.|.....  .+.........+|+++||+|+..             ..+++.|+..++...         +..+.++|
T Consensus       102 ~gy~g~~~~~--~l~~~~~~~~~~vvl~DeieKa~-------------~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI  166 (315)
T d1r6bx3         102 PGYVGFDQGG--LLTDAVIKHPHAVLLLDEIEKAH-------------PDVFNILLQVMDNGTLTDNNGRKADFRNVVLV  166 (315)
T ss_dssp             SCSHHHHHTT--HHHHHHHHCSSEEEEEETGGGSC-------------HHHHHHHHHHHHHSEEEETTTEEEECTTEEEE
T ss_pred             CCccccccCC--hhhHHHHhCccchhhhccccccc-------------chHhhhhHHhhccceecCCCCCccCccceEEE
Confidence              22222211  12333455667899999999987             356777777665311         24578899


Q ss_pred             EEcCCCC-------------------------CCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcC-------CCC
Q psy450          343 GATNRVD-------------------------LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKF-------KLS  390 (478)
Q Consensus       343 ~ttn~~~-------------------------~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~-------~~~  390 (478)
                      +|+|--.                         .+.|.++.  |++..+.+.. .+.++..+|+...+..+       .+.
T Consensus       167 ~Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~ii~f~~-l~~~~~~~I~~~~l~~~~~~l~~~~i~  243 (315)
T d1r6bx3         167 MTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDH-LSTDVIHQVVDKFIVELQVQLDQKGVS  243 (315)
T ss_dssp             EEECSSCC-----------------CHHHHHHHSCHHHHT--TCSEEEECCC-CCHHHHHHHHHHHHHHHHHHHHHTTEE
T ss_pred             eccchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHh--hhhhhhcccc-hhhhHHHHHHHHHHHHHHHHHHhcCcc
Confidence            9998421                         25677777  9999998874 78888888876655322       211


Q ss_pred             ---CCCCHHHHHHh-cCCCCCHHHHHHHHHHHHHHHHHHHH
Q psy450          391 ---DDVSLDSLVHH-FPSQMSGADIYSICSNAWTRAIRRII  427 (478)
Q Consensus       391 ---~~~~~~~la~~-~~~~~sg~di~~l~~~a~~~a~~r~~  427 (478)
                         .+...+.++.. +...+-++.|+.+++.-....+.+.+
T Consensus       244 l~~~~~a~~~l~~~~yd~~~GaR~L~r~Ie~~i~~~la~~i  284 (315)
T d1r6bx3         244 LEVSQEARNWLAEKGYDRAMGARPMARVIQDNLKKPLANEL  284 (315)
T ss_dssp             EEECHHHHHHHHHHHCBTTTBTTTHHHHHHHHHTHHHHHHH
T ss_pred             hhhHHHHHHHHHHhCCCCCCChhhHHHHHHHHHHHHHHHHH
Confidence               11125556554 33445567787777766666665543

>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=99.49  E-value=1.5e-13  Score=132.91  Aligned_cols=156  Identities=23%  Similarity=0.315  Sum_probs=100.8

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC---------------------
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM---------------------  260 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~---------------------  260 (478)
                      |.+.|.+|+|++.+|..|.-.+..+.      .+|+||.||||||||++|++++..+..                     
T Consensus         2 ~~~~f~~I~Gq~~~kral~laa~~~~------~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~~~~~~~~   75 (333)
T d1g8pa_           2 PVFPFSAIVGQEDMKLALLLTAVDPG------IGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWA   75 (333)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHHCGG------GCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTC
T ss_pred             CCCChhhccCcHHHHHHHHHHHhccC------CCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCccccccchh
Confidence            55679999999999987664433221      457999999999999999999987621                     


Q ss_pred             ------------cEEEEechhhhhhhhcch-HH-HHH--------HHHHHhHhCCCeEEEEcCCccccCCCCCCCCCchh
Q psy450          261 ------------NFLAVKGPELLNKYIGQS-EE-NIR--------NVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGV  318 (478)
Q Consensus       261 ------------~~~~v~~~~l~~~~~g~~-~~-~~~--------~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~  318 (478)
                                  +++......-.....|.. .. ...        ..+..|   ...|+|+||++.+.            
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A---~~gvl~iDEi~~~~------------  140 (333)
T d1g8pa_          76 TVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARA---NRGYLYIDECNLLE------------  140 (333)
T ss_dssp             CCSCCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHHCGGGEECCHHHHH---TTEEEEETTGGGSC------------
T ss_pred             hccccCcccccCceeeccCCCCcccccCcchhhhccccCcceeeccccccc---cccEeecccHHHHH------------
Confidence                        111111100001111110 00 000        112222   23599999999886            


Q ss_pred             HHHHHHHHHHhhcCCCC-----------CCCeEEEEEcCCC-CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHH
Q psy450          319 MDRVVSQLLAEMDGVHT-----------SQDVFILGATNRV-DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLK  381 (478)
Q Consensus       319 ~~~~~~~ll~~l~~~~~-----------~~~v~vI~ttn~~-~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~  381 (478)
                       .++++.|+..|+.-.-           ..++++++|+|.. ..++++++.  ||+..+.++.|.+...+..+..
T Consensus       141 -~~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~~~~l~~~llD--Rf~~~i~v~~~~~~~~~~~~~~  212 (333)
T d1g8pa_         141 -DHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVETRVEVIR  212 (333)
T ss_dssp             -HHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHHHHHHHHH
T ss_pred             -HHHHHHHhhhhcCCeEEecccCceecCCCCEEEEEecCccccccccchhh--hhcceeeccCcchhhHHHHHHH
Confidence             4678888888863210           2358889888875 458999999  9999999988777776665553

>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=99.48  E-value=9.1e-14  Score=121.62  Aligned_cols=156  Identities=21%  Similarity=0.325  Sum_probs=110.3

Q ss_pred             cccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhhh--h
Q psy450          206 WEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELLN--K  273 (478)
Q Consensus       206 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~~--~  273 (478)
                      ++.++|.++..+++.+.+....      .++++|+||||+|||++++.+|...          +.+++.++.+.+++  +
T Consensus        21 ld~~igRd~Ei~~l~~iL~r~~------k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~   94 (195)
T d1jbka_          21 LDPVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAK   94 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTC
T ss_pred             CCCCcCcHHHHHHHHHHHhccC------CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCC
Confidence            5678899988888876654322      5579999999999999999999865          57899999999874  4


Q ss_pred             hhcchHHHHHHHHHHhHhC-CCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC----
Q psy450          274 YIGQSEENIRNVFLKARSA-APCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV----  348 (478)
Q Consensus       274 ~~g~~~~~~~~~~~~a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~----  348 (478)
                      |.|+-+..+..++..+... ...||||||++.+.+...+.+. .    .+.+.|.-.+.    .+.+.+|++|...    
T Consensus        95 ~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~-~----d~~~~Lkp~L~----rg~l~~IgatT~eey~~  165 (195)
T d1jbka_          95 YRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGA-M----DAGNMLKPALA----RGELHCVGATTLDEYRQ  165 (195)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------C-C----CCHHHHHHHHH----TTSCCEEEEECHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCc-c----cHHHHHHHHHh----CCCceEEecCCHHHHHH
Confidence            6688899999999887654 3679999999999864322111 1    11223333333    3556788877643    


Q ss_pred             -CCCCccccCCCCCCeEEEeCCCCCHHHHHHHH
Q psy450          349 -DLLDPAILRPGRLDKSLYVGLYEDRISQLGVL  380 (478)
Q Consensus       349 -~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il  380 (478)
                       -.-|++|.+  || ..|.+.- |+.++-..|+
T Consensus       166 ~~e~d~aL~r--rF-~~I~V~E-p~~e~t~~IL  194 (195)
T d1jbka_         166 YIEKDAALER--RF-QKVFVAE-PSVEDTIAIL  194 (195)
T ss_dssp             HTTTCHHHHT--TE-EEEECCC-CCHHHHHTTC
T ss_pred             HHHcCHHHHh--cC-CEeecCC-CCHHHHHHHh
Confidence             235899999  99 5677765 6777765554

>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=99.42  E-value=1.7e-12  Score=126.00  Aligned_cols=171  Identities=20%  Similarity=0.293  Sum_probs=108.6

Q ss_pred             cccCcHHHHHHHHHHHHhh------------------------hhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          208 DIGGLSKLKAEILSTFRGV------------------------NRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~------------------------~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      .++||+++|+.+..++..-                        ....+.++.++||.||+|||||.+|+++|+.++.+|+
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~~~~~i   97 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIA   97 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEE
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhccccee
Confidence            4799999999887665311                        1223566889999999999999999999999999999


Q ss_pred             EEechhhhhh-hhcc-hHHHHHHHHHHh----HhCCCeEEEEcCCccccCCCCCCCCCch-hHHHHHHHHHHhhcCCCC-
Q psy450          264 AVKGPELLNK-YIGQ-SEENIRNVFLKA----RSAAPCVVFFDELDSLAPRRGQEDQSSG-VMDRVVSQLLAEMDGVHT-  335 (478)
Q Consensus       264 ~v~~~~l~~~-~~g~-~~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~-~~~~~~~~ll~~l~~~~~-  335 (478)
                      .++++++... |+|. ....++.++..+    +....+|+++||+|+..+.......... ....+.+.|++.+++... 
T Consensus        98 r~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLqild~~~~~  177 (364)
T d1um8a_          98 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVN  177 (364)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC
T ss_pred             ehhhhhcccchhhHhhhccchhhhhhhchhHHHHhhcccchhhhhhhhccccccccccccccchHHHHhhhhhhcCceec
Confidence            9999887643 4443 233455555443    3345689999999998865422111100 123577888888874211 


Q ss_pred             ----------CCCeEEEEEcCC-------------------------------------------------CCCCCcccc
Q psy450          336 ----------SQDVFILGATNR-------------------------------------------------VDLLDPAIL  356 (478)
Q Consensus       336 ----------~~~v~vI~ttn~-------------------------------------------------~~~ld~~l~  356 (478)
                                ..+.+++.|+|-                                                 +..+.|.++
T Consensus       178 ~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEf~  257 (364)
T d1um8a_         178 IPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELI  257 (364)
T ss_dssp             ---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHH
T ss_pred             cCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhhhhHHHHH
Confidence                      123445555543                                                 112456666


Q ss_pred             CCCCCCeEEEeCCCCCHHHHHHHHH
Q psy450          357 RPGRLDKSLYVGLYEDRISQLGVLK  381 (478)
Q Consensus       357 ~~~Rf~~~i~~~~pp~~~~r~~il~  381 (478)
                      .  |++..+.|.. .+.++..+|+.
T Consensus       258 g--Ri~~iv~f~~-L~~~~l~~Il~  279 (364)
T d1um8a_         258 G--RLPVLSTLDS-ISLEAMVDILQ  279 (364)
T ss_dssp             T--TCCEEEECCC-CCHHHHHHHHH
T ss_pred             H--HhcchhhHhh-hhHHHHHHHHH
Confidence            5  9999999985 89999988885

>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=99.39  E-value=1.9e-12  Score=126.25  Aligned_cols=198  Identities=21%  Similarity=0.349  Sum_probs=121.6

Q ss_pred             CcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhhh--
Q psy450          205 SWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELLN--  272 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~~--  272 (478)
                      .++.++|.+....++.+.+....      .++++|.||||+|||+++..+|...          +..++.++...+..  
T Consensus        20 ~ld~~~gr~~ei~~~~~~L~r~~------k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~   93 (387)
T d1qvra2          20 KLDPVIGRDEEIRRVIQILLRRT------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGA   93 (387)
T ss_dssp             CSCCCCSCHHHHHHHHHHHHCSS------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------
T ss_pred             CCCCCcCcHHHHHHHHHHHhcCC------CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhccc
Confidence            36778999988888887765322      5568999999999999999999865          46799999998875  


Q ss_pred             hhhcchHHHHHHHHHHhHhCC-CeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCC---
Q psy450          273 KYIGQSEENIRNVFLKARSAA-PCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRV---  348 (478)
Q Consensus       273 ~~~g~~~~~~~~~~~~a~~~~-p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~---  348 (478)
                      .|.|+-+..+..++..+.... +.||||||++.+.+..++.+  +   ..+.+.|.-.+.    .+.+-+|++|..-   
T Consensus        94 ~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g--~---~d~a~~Lkp~L~----rg~~~~I~~tT~~ey~  164 (387)
T d1qvra2          94 KYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEG--A---VDAGNMLKPALA----RGELRLIGATTLDEYR  164 (387)
T ss_dssp             ----CHHHHHHHHHHHHHTTCSSEEEEECCC------------------------HHHHH----TTCCCEEEEECHHHHH
T ss_pred             CcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCC--c---ccHHHHHHHHHh----CCCcceeeecCHHHHH
Confidence            467899999999998887764 68899999999986432211  1   122233333332    3556788887642   


Q ss_pred             --CCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCC------CCCCC--CHHHHHH-hcCCCCCHHHHHHHHHH
Q psy450          349 --DLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFK------LSDDV--SLDSLVH-HFPSQMSGADIYSICSN  417 (478)
Q Consensus       349 --~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~------~~~~~--~~~~la~-~~~~~~sg~di~~l~~~  417 (478)
                        + -|++|.|  ||. .|.+.- |+.++-..|++.....+.      ++++.  ..-.++. +.++.+-+..--.++.+
T Consensus       165 ~~e-~d~al~r--rF~-~v~v~e-p~~~~~~~il~~~~~~~e~~h~v~~~~~ai~~~v~ls~ryi~~r~~PdKAidlld~  239 (387)
T d1qvra2         165 EIE-KDPALER--RFQ-PVYVDE-PTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDE  239 (387)
T ss_dssp             HHT-TCTTTCS--CCC-CEEECC-CCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHH
T ss_pred             Hhc-ccHHHHH--hcc-cccCCC-CcHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHhcccccccccChhhHHHHHHH
Confidence              3 3889999  995 666765 799999999987664432      22221  0222232 34666777776777777


Q ss_pred             HHHHH
Q psy450          418 AWTRA  422 (478)
Q Consensus       418 a~~~a  422 (478)
                      |+...
T Consensus       240 a~a~~  244 (387)
T d1qvra2         240 AAARL  244 (387)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77443

>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=99.39  E-value=5.5e-12  Score=113.00  Aligned_cols=161  Identities=16%  Similarity=0.192  Sum_probs=106.7

Q ss_pred             CcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCC------------------------cEEEEe
Q psy450          211 GLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM------------------------NFLAVK  266 (478)
Q Consensus       211 g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~------------------------~~~~v~  266 (478)
                      +++++.++|...+.     .+..|+++||+||||+|||++|+.+|+.+-.                        .++.+.
T Consensus         6 w~~~~~~~l~~~~~-----~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   80 (207)
T d1a5ta2           6 WLRPDFEKLVASYQ-----AGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLA   80 (207)
T ss_dssp             GGHHHHHHHHHHHH-----TTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEEC
T ss_pred             ccHHHHHHHHHHHH-----cCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhh
Confidence            34555555555443     2333777999999999999999999997621                        122221


Q ss_pred             chhhhhhhhcchHHHHHHHHHHhH----hCCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEE
Q psy450          267 GPELLNKYIGQSEENIRNVFLKAR----SAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFIL  342 (478)
Q Consensus       267 ~~~l~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI  342 (478)
                      ..+-   ...-....++.+...+.    .....|++|||+|.+.             ....+.|++.|+.  ...++.+|
T Consensus        81 ~~~~---~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~-------------~~a~n~Llk~lEe--p~~~~~fI  142 (207)
T d1a5ta2          81 PEKG---KNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLT-------------DAAANALLKTLEE--PPAETWFF  142 (207)
T ss_dssp             CCTT---CSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBC-------------HHHHHHHHHHHTS--CCTTEEEE
T ss_pred             hhhc---ccccccchhhHHhhhhhhccccCccceEEechhhhhh-------------hhhhHHHHHHHHh--hcccceee
Confidence            1100   00112344566665543    2345699999999997             4567899999985  45678999


Q ss_pred             EEcCCCCCCCccccCCCCCCeEEEeCCCCCHHHHHHHHHHHHhcCCCCCCCCHHHHHHhc
Q psy450          343 GATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHF  402 (478)
Q Consensus       343 ~ttn~~~~ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~~~~~~~~~~~~~~~la~~~  402 (478)
                      .+|++++.+.+++++  |+ ..+.++. |+.++...+++.   ...++. ..+..+++..
T Consensus       143 l~t~~~~~ll~tI~S--Rc-~~i~~~~-~~~~~~~~~L~~---~~~~~~-~~~~~i~~~s  194 (207)
T d1a5ta2         143 LATREPERLLATLRS--RC-RLHYLAP-PPEQYAVTWLSR---EVTMSQ-DALLAALRLS  194 (207)
T ss_dssp             EEESCGGGSCHHHHT--TS-EEEECCC-CCHHHHHHHHHH---HCCCCH-HHHHHHHHHT
T ss_pred             eeecChhhhhhhhcc--ee-EEEecCC-CCHHHHHHHHHH---cCCCCH-HHHHHHHHHc
Confidence            999999999999999  98 6888875 677777666653   333332 2255555543

>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=99.30  E-value=1e-14  Score=138.09  Aligned_cols=102  Identities=10%  Similarity=0.092  Sum_probs=79.8

Q ss_pred             HHHhhHHHHHHHHHHhhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch-----------hhHhhhccccccccc
Q psy450            7 FHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK-----------YVYFKLCSFDSVNVK   75 (478)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r-----------~~~~~l~~~d~~~~~   75 (478)
                      |.++...+++    ++|.++... +++++|+ .|++  ||||||||||+++++|           .+|++|++||++   
T Consensus       153 ~~~~~~~~~~----~~~~G~~e~-~~~~~f~-~a~~--~~ilf~DEid~~~~~r~~~~~~~~~~r~v~~lL~e~dg~---  221 (321)
T d1w44a_         153 YATVRFGEPL----SGYNTDFNV-FVDDIAR-AMLQ--HRVIVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAM---  221 (321)
T ss_dssp             CEEEEBSCSS----TTCBCCHHH-HHHHHHH-HHHH--CSEEEEECCTTTC-----------CCHHHHHHHHHHHHH---
T ss_pred             eEEEEhhHhh----hcccchHHH-HHHHHHH-HHhh--ccEEEeehhhhhccccccCCCCCcchhhhhhhhhhcccc---
Confidence            4455555555    466666655 9999999 9885  9999999999999877           789999999965   


Q ss_pred             cccchhhhccCCCcEEEEe----------eCHhHHh--ccccEEEeCCCCHHHHHHHHHHHHhhc
Q psy450           76 SNETKDQQCKQQHKKKLVL----------IRKQIQK--LFLKTINVLPLTEPERRLLIQYQLDCL  128 (478)
Q Consensus        76 ~~~~~~~~~~~~~~v~via----------ld~al~r--Rf~~~i~~~~P~~~~r~~il~~~~~~~  128 (478)
                               ....+|+|||          +|+++.|  |||+.++++.||.+.|.+||+.+...+
T Consensus       222 ---------~~~~~v~viaatN~~~~~~~i~~~~~r~~Rf~~~v~v~~pd~~~r~~il~~~~~~~  277 (321)
T d1w44a_         222 ---------AASRGCVVIASLNPTSNDDKIVELVKEASRSNSTSLVISTDVDGEWQVLTRTGEGL  277 (321)
T ss_dssp             ---------HHHHTCEEEEECCCCCCCHHHHHHHHHHHHHSCSEEEEECSSTTEEEEEEECBTTC
T ss_pred             ---------ccCCCeEEEEeCCCcccccchhhhhhccCcccceeecCCCChHHHHHHHHHhccCc
Confidence                     4455688888          4555567  999999999999999999998877654

>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=99.21  E-value=2.5e-10  Score=113.23  Aligned_cols=64  Identities=27%  Similarity=0.421  Sum_probs=52.6

Q ss_pred             ccCcHHHHHHHHHHHHhhhh--------hCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          209 IGGLSKLKAEILSTFRGVNR--------TSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       209 i~g~~~~k~~l~~~~~~~~~--------~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      ++|++++|+.|.-.+..-.+        .....|+||||.||||||||.+|+.+|+.++.||+.++++.+..
T Consensus        16 VvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~fTe   87 (443)
T d1g41a_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTE   87 (443)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC-
T ss_pred             ccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCEEEeecceeee
Confidence            69999999999877754321        12223889999999999999999999999999999999987753

>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=99.09  E-value=1.4e-11  Score=113.28  Aligned_cols=112  Identities=14%  Similarity=0.140  Sum_probs=80.3

Q ss_pred             hhccCccchhhhhHHHHhhhhcCCCeEEEecccccccch---------hhHhhhccccccccccccchhhhccCCCcEEE
Q psy450           22 NYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVK---------YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKL   92 (478)
Q Consensus        22 ~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r---------~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~v   92 (478)
                      .+.+......++++|+ .|++.+||||||||+|++++.+         ++++++..+|...           ....+|+|
T Consensus        79 g~~~~~~~~~i~~if~-~A~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~~v~v  146 (246)
T d1d2na_          79 GFSETAKCQAMKKIFD-DAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAP-----------PQGRKLLI  146 (246)
T ss_dssp             TCCHHHHHHHHHHHHH-HHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCC-----------STTCEEEE
T ss_pred             cccccchhhhhhhhhh-hhhhcccceeehhhhhhHhhhcccccchhHHHHHHHHHHhcCCC-----------ccccceee
Confidence            3444445567999999 9999999999999999997643         5677888888642           34567999


Q ss_pred             Ee-------eCHh-HHhccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCH
Q psy450           93 VL-------IRKQ-IQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFER  151 (478)
Q Consensus        93 ia-------ld~a-l~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~  151 (478)
                      ||       +|++ +++||+..|++  |+..+|.+|++.+....  .+ ...+. ..+++.+.|.+.
T Consensus       147 i~tTn~~~~ld~~~~~~rF~~~i~~--P~~~~r~~il~~l~~~~--~~-~~~~~-~~i~~~~~g~~~  207 (246)
T d1d2na_         147 IGTTSRKDVLQEMEMLNAFSTTIHV--PNIATGEQLLEALELLG--NF-KDKER-TTIAQQVKGKKV  207 (246)
T ss_dssp             EEEESCHHHHHHTTCTTTSSEEEEC--CCEEEHHHHHHHHHHHT--CS-CHHHH-HHHHHHHTTSEE
T ss_pred             eeccCChhhccchhhcCccceEEec--CCchhHHHHHHHHHhcc--CC-ChHHH-HHHHHHcCCCcc
Confidence            98       7765 66699999987  55555666776554432  11 23444 888888888653

>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=99.09  E-value=2e-10  Score=101.68  Aligned_cols=113  Identities=13%  Similarity=0.149  Sum_probs=87.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC------CcEEEEechhhhhhhhcchHHHHHHHHHHhHh----CCCeEEEEcCCc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR------MNFLAVKGPELLNKYIGQSEENIRNVFLKARS----AAPCVVFFDELD  303 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~------~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid  303 (478)
                      +.++||+||||+|||++|..+++...      ..++.+.+..-     .-.-..++++.+.+..    +..-|++|||+|
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~-----~I~Id~IR~i~~~~~~~~~~~~~KviIId~ad   89 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGE-----NIGIDDIRTIKDFLNYSPELYTRKYVIVHDCE   89 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSS-----CBCHHHHHHHHHHHTSCCSSSSSEEEEETTGG
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcC-----CCCHHHHHHHHHHHhhCcccCCCEEEEEeCcc
Confidence            67899999999999999999998762      24777765310     1134556676666543    334699999999


Q ss_pred             cccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCCCCCccccCCCCCCeEEEeCC
Q psy450          304 SLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL  369 (478)
Q Consensus       304 ~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~~ld~~l~~~~Rf~~~i~~~~  369 (478)
                      .+.             ....+.|++.++.  +..+.++|.+|+.++.+.+.+++  |+ ..+.++.
T Consensus        90 ~l~-------------~~aqNaLLK~LEE--Pp~~t~fiLit~~~~~ll~TI~S--RC-~~i~~~~  137 (198)
T d2gnoa2          90 RMT-------------QQAANAFLKALEE--PPEYAVIVLNTRRWHYLLPTIKS--RV-FRVVVNV  137 (198)
T ss_dssp             GBC-------------HHHHHHTHHHHHS--CCTTEEEEEEESCGGGSCHHHHT--TS-EEEECCC
T ss_pred             ccc-------------hhhhhHHHHHHhC--CCCCceeeeccCChhhCHHHHhc--ce-EEEeCCC
Confidence            997             4678899999985  45678888899999999999999  98 5777765

>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=99.05  E-value=7.9e-10  Score=101.23  Aligned_cols=92  Identities=21%  Similarity=0.333  Sum_probs=61.4

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-----hhcchH
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-----YIGQSE  279 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-----~~g~~~  279 (478)
                      +.+|.+...+.+.+.+......    ...|+|+|++|||||++|+++....   ..+++.+++..+...     ..|...
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~----~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~~lfg~~~   76 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCA----ECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEK   76 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTC----CSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCT
T ss_pred             CeEecCHHHHHHHHHHHHHhCC----CCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHHHhcCccc
Confidence            3577788888877776665432    4459999999999999999998765   457888888654322     111100


Q ss_pred             -------HHHHHHHHHhHhCCCeEEEEcCCcccc
Q psy450          280 -------ENIRNVFLKARSAAPCVVFFDELDSLA  306 (478)
Q Consensus       280 -------~~~~~~~~~a~~~~p~il~iDeid~l~  306 (478)
                             .....+|..+..   +.|||||+|.|.
T Consensus        77 ~~~~~~~~~~~g~l~~a~g---GtL~l~~i~~L~  107 (247)
T d1ny5a2          77 GAFTGAVSSKEGFFELADG---GTLFLDEIGELS  107 (247)
T ss_dssp             TSSTTCCSCBCCHHHHTTT---SEEEEESGGGCC
T ss_pred             CCcCCcccccCCHHHccCC---CEEEEeChHhCC
Confidence                   001223444433   489999999997

>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=98.90  E-value=1.6e-10  Score=107.46  Aligned_cols=40  Identities=28%  Similarity=0.473  Sum_probs=36.9

Q ss_pred             CCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          233 KRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       233 ~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      .|+++||+||||||||++|+++|.+++.+++.++++++..
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~~~~   70 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFKQ   70 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEecHHHHH
Confidence            3889999999999999999999999999999999887753

>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=98.80  E-value=2.9e-07  Score=84.70  Aligned_cols=188  Identities=13%  Similarity=0.137  Sum_probs=112.6

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhhhhcc---
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQ---  277 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~~~g~---  277 (478)
                      .|...-++++|.++..++|.+.          ..+.++++||+|+|||++++.+++..+..+..+++..........   
T Consensus         6 ~p~~~~~~f~GR~~el~~l~~~----------~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~~~~~~~~~~~~~   75 (283)
T d2fnaa2           6 SPKDNRKDFFDREKEIEKLKGL----------RAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKD   75 (283)
T ss_dssp             SCCCSGGGSCCCHHHHHHHHHT----------CSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCCCHHH
T ss_pred             CCCCChhhCCChHHHHHHHHhc----------cCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEeccccccccccHHH
Confidence            3556679999999988887642          245799999999999999999999999998888764332110000   


Q ss_pred             -------------------------------------------hHHHHHHHHHHh--HhCCCeEEEEcCCccccCCCCCC
Q psy450          278 -------------------------------------------SEENIRNVFLKA--RSAAPCVVFFDELDSLAPRRGQE  312 (478)
Q Consensus       278 -------------------------------------------~~~~~~~~~~~a--~~~~p~il~iDeid~l~~~~~~~  312 (478)
                                                                 ....+..+++..  ....+.++++||++.+...... 
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~-  154 (283)
T d2fnaa2          76 FLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGV-  154 (283)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTC-
T ss_pred             HHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchH-
Confidence                                                       000122233322  2245678999999998743211 


Q ss_pred             CCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC-------C--CCccccCCCCCCeEEEeCCCCCHHHHHHHHHHH
Q psy450          313 DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD-------L--LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAV  383 (478)
Q Consensus       313 ~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~-------~--ld~~l~~~~Rf~~~i~~~~pp~~~~r~~il~~~  383 (478)
                              .+...+....+   ...++..+.++....       .  ....+.  +|+...+.++. .+.++..++++..
T Consensus       155 --------~~~~~l~~~~~---~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~i~L~~-l~~~e~~~~l~~~  220 (283)
T d2fnaa2         155 --------NLLPALAYAYD---NLKRIKFIMSGSEMGLLYDYLRVEDPESPLF--GRAFSTVELKP-FSREEAIEFLRRG  220 (283)
T ss_dssp             --------CCHHHHHHHHH---HCTTEEEEEEESSHHHHHHHTTTTCTTSTTT--TCCCEEEEECC-CCHHHHHHHHHHH
T ss_pred             --------HHHHHHHHHHH---hhhhhhhhhccccchHHHHHHHhhhhcchhc--ccceeEEeeCC-CCHHHHHHHHHhh
Confidence                    11222222222   122344444433211       1  111122  36667788875 7888888899888


Q ss_pred             HhcCCCCCCCCHHHHHHhcCCCCCHHHHHHHHH
Q psy450          384 VRKFKLSDDVSLDSLVHHFPSQMSGADIYSICS  416 (478)
Q Consensus       384 ~~~~~~~~~~~~~~la~~~~~~~sg~di~~l~~  416 (478)
                      +...++..+. .+.+.+.+ +|. +.-+..++.
T Consensus       221 ~~~~~~~~~~-~~~i~~~~-~G~-P~~L~~~~~  250 (283)
T d2fnaa2         221 FQEADIDFKD-YEVVYEKI-GGI-PGWLTYFGF  250 (283)
T ss_dssp             HHHHTCCCCC-HHHHHHHH-CSC-HHHHHHHHH
T ss_pred             hhhcCCCHHH-HHHHHHHh-CCC-HHHHHHHHH
Confidence            7776665543 77777776 565 445555444

>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=98.53  E-value=3.7e-08  Score=93.11  Aligned_cols=97  Identities=10%  Similarity=0.103  Sum_probs=69.8

Q ss_pred             ccCccchhhhhHHHHhhhh-----cCCCeEEEecccccccch-----------hhHhhhccccccccccccchhhhccCC
Q psy450           24 FATPRYHHLNDIVKINLKK-----YNLDIFKYDEVNYLCNVK-----------YVYFKLCSFDSVNVKSNETKDQQCKQQ   87 (478)
Q Consensus        24 ~~~~~~~~~~~if~~~a~~-----~~p~ilfiDe~d~i~~~r-----------~~~~~l~~~d~~~~~~~~~~~~~~~~~   87 (478)
                      +..-....++.+|. .|+.     .+||||||||+|++++++           +++.+|+.||+......   ..... .
T Consensus        91 ~~~~~~~~~~~~f~-~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~---~~~i~-~  165 (309)
T d1ofha_          91 VGKEVDSIIRDLTD-SAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTK---HGMVK-T  165 (309)
T ss_dssp             GGGSTTHHHHHHHH-TTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEET---TEEEE-C
T ss_pred             Eeeeccccccccch-hhhcccccccCCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecC---CeEEE-c
Confidence            33344447899998 7754     369999999999999865           56778888996432100   00011 2


Q ss_pred             CcEEEEe-----------eCHhHHhccccEEEeCCCCHHHHHHHHHHHH
Q psy450           88 HKKKLVL-----------IRKQIQKLFLKTINVLPLTEPERRLLIQYQL  125 (478)
Q Consensus        88 ~~v~via-----------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~  125 (478)
                      .+|++|+           ++|+++.||+.++.|+.|+..++.+|++.+.
T Consensus       166 s~ilfi~~ga~~~~~~~~~~p~l~~R~~~~i~~~~~~~~~~~~Il~~~~  214 (309)
T d1ofha_         166 DHILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILTEPH  214 (309)
T ss_dssp             TTCEEEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHSST
T ss_pred             cceeEEeccchhhcCcccchhhhhhhhheeeeccCCCHHHHHHHHHHHH
Confidence            3355553           8999999999999999999999999986543

>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=98.44  E-value=9.3e-07  Score=80.74  Aligned_cols=156  Identities=12%  Similarity=0.107  Sum_probs=102.2

Q ss_pred             hhccCccchhhhhHHHHhhhhcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-------
Q psy450           22 NYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-------   94 (478)
Q Consensus        22 ~~~~~~~~~~~~~if~~~a~~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-------   94 (478)
                      +|-++..+ .++.+++ .+++..++|+||||++.|++...-..  ..+|..      ....+...++.+.|||       
T Consensus        90 ~~~g~~e~-r~~~i~~-~~~~~~~iIlfiDeih~l~~~g~~~g--~~~d~a------~~Lkp~L~rg~i~vIgatT~eey  159 (268)
T d1r6bx2          90 KYRGDFEK-RFKALLK-QLEQDTNSILFIDEIHTIIGAGAASG--GQVDAA------NLIKPLLSSGKIRVIGSTTYQEF  159 (268)
T ss_dssp             CCSSCHHH-HHHHHHH-HHSSSSCEEEEETTTTTTTTSCCSSS--CHHHHH------HHHSSCSSSCCCEEEEEECHHHH
T ss_pred             ccchhHHH-HHHHHHH-HhhccCCceEEecchHHHhcCCCCCC--ccccHH------HHhhHHHhCCCCeEEEeCCHHHH
Confidence            44444444 8888998 88888899999999999986541000  111110      0122445678899999       


Q ss_pred             -----eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCC--CCCCChhHHHHHHHhc-----CCCCHHHHHHHHHHHH
Q psy450           95 -----IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGG--DYGFDASLVEYLSSVT-----SGFERHDLTCLVRLSV  162 (478)
Q Consensus        95 -----ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~--~~~~~~~~i~~la~~t-----~G~s~~di~~l~~~a~  162 (478)
                           -|||+.||| .+|.++.|+.++-.+||+.+...++.  ....+.+.++.+...+     +.+-+...-.++++|+
T Consensus       160 ~~~~e~d~al~rrF-~~I~V~Eps~e~t~~IL~~~~~~~e~~h~v~~~~~al~~~v~ls~ryi~~~~~PdKAIdllDea~  238 (268)
T d1r6bx2         160 SNIFEKDRALARRF-QKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAG  238 (268)
T ss_dssp             HCCCCCTTSSGGGE-EEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHHHHHH
T ss_pred             HHHHhhcHHHHhhh-cccccCCCCHHHHHHHHHHhhHHHhccCCEEeChHHHHHHHHHHHhhccCCCCCcHHHHHHHHHH
Confidence                 699999999 67999999999999999886654321  2334444445555432     3344455555778887


Q ss_pred             HHHHHhh-cCCCCCCCHHHHHHHHHHh
Q psy450          163 KNKMLKQ-GINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       163 ~~a~~~~-~~~~~~it~~d~~~a~~~~  188 (478)
                      ..+.... ......+...|+...+.++
T Consensus       239 a~~~~~~~~~~~~~i~~~di~~~i~~~  265 (268)
T d1r6bx2         239 ARARLMPVSKRKKTVNVADIESVVARI  265 (268)
T ss_dssp             HHHHHSSSCCCCCSCCHHHHHHHHHHH
T ss_pred             HHHHhhccccCcccCCHHHHHHHHHHH
Confidence            7664332 2234568888887777665

>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=98.42  E-value=6.5e-07  Score=76.68  Aligned_cols=26  Identities=27%  Similarity=0.543  Sum_probs=23.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCc
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMN  261 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~  261 (478)
                      .|+|+|||||||||+++.++..++.+
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCCC
Confidence            38999999999999999999988543

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=98.23  E-value=1.8e-05  Score=70.86  Aligned_cols=138  Identities=12%  Similarity=0.094  Sum_probs=90.2

Q ss_pred             cCCCeEEEecccccccchhhHhhhccccccccccc-----cchhhhccCCCcEEEEe-------eCHhHHhccccEEEeC
Q psy450           43 YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSN-----ETKDQQCKQQHKKKLVL-------IRKQIQKLFLKTINVL  110 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~-----~~~~~~~~~~~~v~via-------ld~al~rRf~~~i~~~  110 (478)
                      ...+++||||+|.+.+.. .+.++..++.......     ...... ....++++|+       +++++++||...+.++
T Consensus        85 ~~~~~~~ide~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~I~at~~~~~~~~~~~~r~~~~~~~~  162 (238)
T d1in4a2          85 ERGDVLFIDEIHRLNKAV-EELLYSAIEDFQIDIMIGKGPSAKSIR-IDIQPFTLVGATTRSGLLSSPLRSRFGIILELD  162 (238)
T ss_dssp             CTTCEEEEETGGGCCHHH-HHHHHHHHHTSCCCC----------------CCCEEEEEESCGGGSCHHHHTTCSEEEECC
T ss_pred             ccCCchHHHHHHHhhhHH-HhhcccceeeeeeeeeecCcccccccc-cCCCCeEEEEecCCCccccccceeeeeEEEEec
Confidence            357999999999996544 1222222221110000     000001 1122344444       8999999999999999


Q ss_pred             CCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          111 PLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       111 ~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      .|+.+++..+++.+....  ....+.+.++.++..+.| +++.+.++++.+...+...   ....++.++...++..+
T Consensus       163 ~~~~~~~~~~l~~~~~~~--~~~~~~~~l~~i~~~s~g-d~R~ai~~l~~~~~~~~~~---~~~~it~~~~~~al~~l  234 (238)
T d1in4a2         163 FYTVKELKEIIKRAASLM--DVEIEDAAAEMIAKRSRG-TPRIAIRLTKRVRDMLTVV---KADRINTDIVLKTMEVL  234 (238)
T ss_dssp             CCCHHHHHHHHHHHHHHT--TCCBCHHHHHHHHHTSTT-CHHHHHHHHHHHHHHHHHH---TCSSBCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHhhhhc--cchhhHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHh---cCCccCHHHHHHHHHhh
Confidence            999999999999999776  445556655889888776 6777777777766555433   44568998888888765

>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=98.14  E-value=2.5e-05  Score=71.43  Aligned_cols=134  Identities=9%  Similarity=0.087  Sum_probs=89.7

Q ss_pred             hcCCCeEEEecccccccch-----hhHhhhccccccccccccchhhhccCCCcEEEEe-------------eCHhHHhcc
Q psy450           42 KYNLDIFKYDEVNYLCNVK-----YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-------------IRKQIQKLF  103 (478)
Q Consensus        42 ~~~p~ilfiDe~d~i~~~r-----~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-------------ld~al~rRf  103 (478)
                      ...+.++++||+|.+....     ....+...++.+.         .......+.+|+             .++++.+||
T Consensus       130 ~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~---------~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~  200 (287)
T d1w5sa2         130 ENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIP---------SRDGVNRIGFLLVASDVRALSYMREKIPQVESQI  200 (287)
T ss_dssp             HTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSC---------CTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTC
T ss_pred             ccCccccceeEEEEeccccccchhHHHHHHHHHHhcc---------hhhcccceeEEeecccHHHHHHHHhhccchhccc
Confidence            4567899999999997654     1112211111100         112233333333             457888899


Q ss_pred             ccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCC-----CHHHHHHHHHHHHHHHHHhhcCCCCCCCH
Q psy450          104 LKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGF-----ERHDLTCLVRLSVKNKMLKQGINKRDLQK  178 (478)
Q Consensus       104 ~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~-----s~~di~~l~~~a~~~a~~~~~~~~~~it~  178 (478)
                      ...++|+.|+.++..+|++..++....+...+.+.++.+|+.+.++     .......+++.|+..+..+   +...|+.
T Consensus       201 ~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~~~~~~~~gd~R~ai~~l~~a~~~A~~~---~~~~It~  277 (287)
T d1w5sa2         201 GFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAM---GRDSLSE  277 (287)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHT---TCSSCCH
T ss_pred             ceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHHHhccccCCCCHHHHHHHHHHHHHHHHHc---CCCCCCH
Confidence            9999999999999999999988653223345566668888877532     4555667888888777644   6678999


Q ss_pred             HHHHHHHHH
Q psy450          179 EDFQQIYDD  187 (478)
Q Consensus       179 ~d~~~a~~~  187 (478)
                      +|+..|+.+
T Consensus       278 ~~V~~A~~e  286 (287)
T d1w5sa2         278 DLVRKAVSE  286 (287)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            999999864

>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=98.10  E-value=2.1e-06  Score=71.90  Aligned_cols=31  Identities=32%  Similarity=0.640  Sum_probs=28.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      ++|+|.|||||||||+|+.+|+.++.+++..
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~~~id~   33 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDS   33 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEEH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCeEee
Confidence            4699999999999999999999999998643

>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=98.04  E-value=1.2e-06  Score=75.28  Aligned_cols=40  Identities=15%  Similarity=0.223  Sum_probs=34.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      ++.|+|.|||||||||+|++||+.++.+++......+...
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~~~~i~~~~~~~~~~   46 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFNTTSAWEYGREFVFE   46 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCEEECCTTHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCCeEeeehHHHhhh
Confidence            6789999999999999999999999999887766555433

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.94  E-value=3.6e-06  Score=81.12  Aligned_cols=132  Identities=11%  Similarity=0.034  Sum_probs=84.4

Q ss_pred             ccCccchhhhhHHHHhhhhcC-CCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe--------
Q psy450           24 FATPRYHHLNDIVKINLKKYN-LDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL--------   94 (478)
Q Consensus        24 ~~~~~~~~~~~if~~~a~~~~-p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via--------   94 (478)
                      -|+- +..+..|.. .+.+.. +.||||||++.|++.+.-   -..+|..+      ...+...++.+-|||        
T Consensus        96 ~g~~-e~r~~~i~~-~~~~~~~~~ilfide~h~l~~~g~~---~g~~d~a~------~Lkp~L~rg~~~~I~~tT~~ey~  164 (387)
T d1qvra2          96 RGEF-EERLKAVIQ-EVVQSQGEVILFIDELHTVVGAGKA---EGAVDAGN------MLKPALARGELRLIGATTLDEYR  164 (387)
T ss_dssp             --CH-HHHHHHHHH-HHHTTCSSEEEEECCC----------------------------HHHHHTTCCCEEEEECHHHHH
T ss_pred             chhH-HHHHHHHHH-HhccCCCceEEEeccHHHHhcCCCC---CCcccHHH------HHHHHHhCCCcceeeecCHHHHH
Confidence            3444 447888887 777764 789999999999876521   12344321      123556788899999        


Q ss_pred             ---eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhcCCC--CCCChhHHHHHHH-----hcCCCCHHHHHHHHHHHHHH
Q psy450           95 ---IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGD--YGFDASLVEYLSS-----VTSGFERHDLTCLVRLSVKN  164 (478)
Q Consensus        95 ---ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~~~~--~~~~~~~i~~la~-----~t~G~s~~di~~l~~~a~~~  164 (478)
                         -|+|+.||| ..|.|+.|+.++-.+||+.....++..  +..+.+.+...+.     .++.+-+..--.++++|+..
T Consensus       165 ~~e~d~al~rrF-~~v~v~ep~~~~~~~il~~~~~~~e~~h~v~~~~~ai~~~v~ls~ryi~~r~~PdKAidlld~a~a~  243 (387)
T d1qvra2         165 EIEKDPALERRF-QPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAAR  243 (387)
T ss_dssp             HHTTCTTTCSCC-CCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHHH
T ss_pred             HhcccHHHHHhc-ccccCCCCcHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHhcccccccccChhhHHHHHHHHHHH
Confidence               799999999 679999999999999999888665322  2334444455555     35667888888889998887


Q ss_pred             HHH
Q psy450          165 KML  167 (478)
Q Consensus       165 a~~  167 (478)
                      ...
T Consensus       244 ~~i  246 (387)
T d1qvra2         244 LRM  246 (387)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            753

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.94  E-value=8.8e-07  Score=76.55  Aligned_cols=86  Identities=12%  Similarity=0.083  Sum_probs=59.1

Q ss_pred             ccCccchhhhhHHHHhhhhcC-CCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe--------
Q psy450           24 FATPRYHHLNDIVKINLKKYN-LDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL--------   94 (478)
Q Consensus        24 ~~~~~~~~~~~if~~~a~~~~-p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via--------   94 (478)
                      .++..+ .++.+++ .+.++. +.||||||++.+.+...-   -..+|..      ....+...++.+.|||        
T Consensus        96 rG~~E~-rl~~il~-e~~~~~~~iILfIDeih~l~~~g~~---~g~~d~~------~~Lkp~L~rg~l~~IgatT~eey~  164 (195)
T d1jbka_          96 RGEFEE-RLKGVLN-DLAKQEGNVILFIDELHTMVGAGKA---DGAMDAG------NMLKPALARGELHCVGATTLDEYR  164 (195)
T ss_dssp             HHHHHH-HHHHHHH-HHHHSTTTEEEEEETGGGGTT---------CCCCH------HHHHHHHHTTSCCEEEEECHHHHH
T ss_pred             cHHHHH-HHHHHHH-HHhcCCCcEEEEcchHHHHhcCCCC---CCcccHH------HHHHHHHhCCCceEEecCCHHHHH
Confidence            334444 7888887 765554 789999999999876511   1123321      1123445578888888        


Q ss_pred             ----eCHhHHhccccEEEeCCCCHHHHHHHH
Q psy450           95 ----IRKQIQKLFLKTINVLPLTEPERRLLI  121 (478)
Q Consensus        95 ----ld~al~rRf~~~i~~~~P~~~~r~~il  121 (478)
                          -|||+.||| ..|.++.|+.++-.+||
T Consensus       165 ~~~e~d~aL~rrF-~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         165 QYIEKDAALERRF-QKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHTTTCHHHHTTE-EEEECCCCCHHHHHTTC
T ss_pred             HHHHcCHHHHhcC-CEeecCCCCHHHHHHHh
Confidence                699999999 67999999999988775

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.92  E-value=8e-06  Score=68.75  Aligned_cols=31  Identities=29%  Similarity=0.550  Sum_probs=28.5

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      +|+|.|+||+||||+++.+|+.+|.+|+..+
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l~~~~~d~d   32 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDLDLVFLDSD   32 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCEEecC
Confidence            5899999999999999999999999998654

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.89  E-value=3.7e-06  Score=71.13  Aligned_cols=29  Identities=34%  Similarity=0.746  Sum_probs=26.9

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      .|+|.|||||||||+|+.||+.++.+++.
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l~~~~i~   34 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKSGLKYIN   34 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCcEEe
Confidence            48899999999999999999999999865

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.88  E-value=3.1e-06  Score=71.94  Aligned_cols=37  Identities=35%  Similarity=0.451  Sum_probs=32.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ++-|+|.|||||||||+|+.+++.++.+++.++...+
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~d~~   40 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDL   40 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCEEEecHHHH
Confidence            4568899999999999999999999999999887544

>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=97.85  E-value=0.00017  Score=65.14  Aligned_cols=132  Identities=9%  Similarity=0.061  Sum_probs=90.2

Q ss_pred             hhcCCCeEEEecccccccchh--hHhhhccccccccccccchhhhccCCCcEEEEe----------eCHhHHhcc-ccEE
Q psy450           41 KKYNLDIFKYDEVNYLCNVKY--VYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL----------IRKQIQKLF-LKTI  107 (478)
Q Consensus        41 ~~~~p~ilfiDe~d~i~~~r~--~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via----------ld~al~rRf-~~~i  107 (478)
                      ....+.++++|++|.+.....  ...++..++             ......+.+|+          +++++.+|+ ...|
T Consensus       121 ~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~i~~~~~~~~~~~~~~~~~~r~~~~~i  187 (276)
T d1fnna2         121 ERDLYMFLVLDDAFNLAPDILSTFIRLGQEAD-------------KLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVI  187 (276)
T ss_dssp             HTTCCEEEEEETGGGSCHHHHHHHHHHTTCHH-------------HHSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEE
T ss_pred             hcccccccchhHHHHhhhhhhhhHHHHHhccc-------------cccccceEEeecCCchhhhhhcchhhhhhhcchhc
Confidence            344678889999998876541  122222222             12334455555          788888875 4679


Q ss_pred             EeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCC--------CCHHHHHHHHHHHHHHHHHhhcCCCCCCCHH
Q psy450          108 NVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSG--------FERHDLTCLVRLSVKNKMLKQGINKRDLQKE  179 (478)
Q Consensus       108 ~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G--------~s~~di~~l~~~a~~~a~~~~~~~~~~it~~  179 (478)
                      .|+.|+.+++.+|++.++.........+.+.++.++..+..        -+...+..+|+.|+..+..+   +...|+.+
T Consensus       188 ~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~~~~~~G~~R~a~~ll~~a~~~A~~~---~~~~I~~e  264 (276)
T d1fnna2         188 RFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQN---GRKHIAPE  264 (276)
T ss_dssp             ECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHHHT---TCSSCCHH
T ss_pred             cccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhhhhhcCCCHHHHHHHHHHHHHHHHHc---CCCCcCHH
Confidence            99999999999999998866433333455556778876532        24456677888888877644   56789999


Q ss_pred             HHHHHHHHh
Q psy450          180 DFQQIYDDL  188 (478)
Q Consensus       180 d~~~a~~~~  188 (478)
                      |+.+|.+++
T Consensus       265 dv~~A~~~~  273 (276)
T d1fnna2         265 DVRKSSKEV  273 (276)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998876

>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=97.81  E-value=0.00013  Score=65.15  Aligned_cols=138  Identities=12%  Similarity=0.012  Sum_probs=88.0

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccc--cc--cccchhhhccCCCcEEEEe-------eCHhHHhccccEEEeCCC
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVN--VK--SNETKDQQCKQQHKKKLVL-------IRKQIQKLFLKTINVLPL  112 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~--~~--~~~~~~~~~~~~~~v~via-------ld~al~rRf~~~i~~~~P  112 (478)
                      ..+|+||||+|.+.+.. ...++..|+...  ..  .............++++++       .+++.+||+...+.+..|
T Consensus        87 ~~~i~~iDe~~~~~~~~-~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~  165 (239)
T d1ixsb2          87 EGDILFIDEIHRLSRQA-EEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYY  165 (239)
T ss_dssp             TTCEEEEETGGGCCHHH-HHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCSSCSCGGGGGCSEEEECCCC
T ss_pred             CCCeeeeecccccchhH-HHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccCcccccchhhcccceeeEeecc
Confidence            46899999999987654 122222232110  00  0000001112233344444       778889999999999999


Q ss_pred             CHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          113 TEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       113 ~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      +.+++.++++..+...  ....+.+.++.++..+.| ......++++.+...+   ...+...|+.++...++..+
T Consensus       166 ~~~~~~~i~~~~~~~~--~i~~~~~~l~~ia~~s~g-d~R~a~~~l~~~~~~a---~~~~~~~It~~~~~~~l~~l  235 (239)
T d1ixsb2         166 TPEELAQGVMRDARLL--GVRITEEAALEIGRRSRG-TMRVAKRLFRRVRDFA---QVAGEEVITRERALEALAAL  235 (239)
T ss_dssp             CHHHHHHHHHHHHGGG--CCCBCHHHHHHHHHHTTS-SHHHHHHHHHHHHHHH---TTSCCSCBCHHHHHHHHHHH
T ss_pred             ChhhhhHHHHHHHHHh--CCccchHHHHHHHHHcCC-CHHHHHHHHHHHHHHH---HHhCCCCcCHHHHHHHHhhh
Confidence            9999999999998776  444556666999999988 4455555555544333   23356779999888888654

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.80  E-value=1e-05  Score=68.46  Aligned_cols=37  Identities=22%  Similarity=0.272  Sum_probs=32.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      ++-|+|+|+||+||||+|++|++.++.+++.++...+
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~~~d~~   39 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSL   39 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCCeEEeecchh
Confidence            4568999999999999999999999999888875443

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=97.78  E-value=0.00018  Score=64.29  Aligned_cols=130  Identities=13%  Similarity=0.173  Sum_probs=84.5

Q ss_pred             hhhhHHHHhhhh----cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-----eCHhHHh
Q psy450           31 HLNDIVKINLKK----YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-----IRKQIQK  101 (478)
Q Consensus        31 ~~~~if~~~a~~----~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-----ld~al~r  101 (478)
                      .++.+.+ .++.    ...-|+||||+|.+-. ...+.|+..|+..            .....+++++     +.+++++
T Consensus        99 ~ir~~~~-~~~~~~~~~~~kviiIde~d~l~~-~~q~~Llk~lE~~------------~~~~~~il~tn~~~~i~~~i~S  164 (239)
T d1njfa_          99 DTRDLLD-NVQYAPARGRFKVYLIDEVHMLSR-HSFNALLKTLEEP------------PEHVKFLLATTDPQKLPVTILS  164 (239)
T ss_dssp             HHHHHHH-SCCCSCSSSSSEEEEEETGGGSCH-HHHHHHHHHHHSC------------CTTEEEEEEESCGGGSCHHHHT
T ss_pred             HHHHHHH-HHHhccccCCCEEEEEECcccCCH-HHHHHHHHHHhcC------------CCCeEEEEEcCCccccChhHhh
Confidence            4555665 4432    2335999999999753 3457788888731            1122233333     8999999


Q ss_pred             ccccEEEeCCCCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHH
Q psy450          102 LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDF  181 (478)
Q Consensus       102 Rf~~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~  181 (478)
                      |+ ..+.|+.|+.++-.+++.......+  ...+.+.++.++..+.| +.+..-++++.+.    ..   +...|+.+++
T Consensus       165 Rc-~~i~~~~~~~~~i~~~l~~i~~~e~--~~~~~~~l~~i~~~s~G-d~R~ain~l~~~~----~~---~~~~I~~~~v  233 (239)
T d1njfa_         165 RC-LQFHLKALDVEQIRHQLEHILNEEH--IAHEPRALQLLARAAEG-SLRDALSLTDQAI----AS---GDGQVSTQAV  233 (239)
T ss_dssp             TS-EEEECCCCCHHHHHHHHHHHHHHHT--CCBCHHHHHHHHHHTTT-CHHHHHHHHHHHH----HH---TTTSBCHHHH
T ss_pred             hh-cccccccCcHHHhhhHHHHHHhhhc--cCCCHHHHHHHHHHcCC-CHHHHHHHHHHHH----Hh---CCCCcCHHHH
Confidence            99 7899999999999999988887653  34455566889988775 3333333333322    22   3456888888


Q ss_pred             HHHH
Q psy450          182 QQIY  185 (478)
Q Consensus       182 ~~a~  185 (478)
                      ..++
T Consensus       234 ~~~l  237 (239)
T d1njfa_         234 SAML  237 (239)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            7665

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.78  E-value=7.8e-06  Score=69.43  Aligned_cols=31  Identities=19%  Similarity=0.438  Sum_probs=27.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEE
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAV  265 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v  265 (478)
                      +.|+|.|+|||||||+++.+|+.+|.+|+..
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~~~id~   33 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGYEFVDT   33 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCCCEEeh
Confidence            4588999999999999999999999998753

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.77  E-value=1.4e-05  Score=67.36  Aligned_cols=30  Identities=30%  Similarity=0.557  Sum_probs=27.0

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      |+|.|+|||||||+++.+|+.++.+|+..+
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~fiD~D   33 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVGLLDTD   33 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            778899999999999999999999987543

>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=97.69  E-value=0.00016  Score=66.26  Aligned_cols=48  Identities=17%  Similarity=0.164  Sum_probs=36.5

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ++.|.+..++++.+.+......   ....+.|+|..|+|||++|+.+.+..
T Consensus        21 ~~~gR~~~~~~i~~~L~~~~~~---~~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          21 TCYIREYHVDRVIKKLDEMCDL---DSFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             CSCCCHHHHHHHHHHHHHHTTS---SSEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             ceeCcHHHHHHHHHHHHhccCC---CceEEEEECCCCCCHHHHHHHHHHhh
Confidence            4678888888887776543211   14457899999999999999998763

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.68  E-value=0.00028  Score=62.55  Aligned_cols=121  Identities=8%  Similarity=0.099  Sum_probs=80.8

Q ss_pred             CCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------eCHhHHhccccEEEeCCCCHHHHH
Q psy450           45 LDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------IRKQIQKLFLKTINVLPLTEPERR  118 (478)
Q Consensus        45 p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------ld~al~rRf~~~i~~~~P~~~~r~  118 (478)
                      .-|+||||+|.+.... .+.++..++.             .....++++.      +.+++++|| ..|.|+.|+.++..
T Consensus       109 ~~viiiDe~d~l~~~~-~~~l~~~~~~-------------~~~~~~~i~~~~~~~~~~~~l~sr~-~~i~f~~~~~~~~~  173 (237)
T d1sxjd2         109 YKIIILDEADSMTADA-QSALRRTMET-------------YSGVTRFCLICNYVTRIIDPLASQC-SKFRFKALDASNAI  173 (237)
T ss_dssp             CEEEEETTGGGSCHHH-HHHHHHHHHH-------------TTTTEEEEEEESCGGGSCHHHHHHS-EEEECCCCCHHHHH
T ss_pred             ceEEEEecccccCHHH-HHHHhhcccc-------------ccccccccccccccccccccccchh-hhhccccccccccc
Confidence            3499999999987643 3333333331             2233344444      889999999 78999999999999


Q ss_pred             HHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Q psy450          119 LLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIY  185 (478)
Q Consensus       119 ~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~  185 (478)
                      .+|+..+.+.  .+..+.+.++.+++.+.| +.+..-++++.++..+..  ......|+.+++.+++
T Consensus       174 ~~L~~i~~~e--~i~i~~~~l~~ia~~s~g-d~R~ai~~L~~~~~~~~~--~~~~~~It~~~i~e~~  235 (237)
T d1sxjd2         174 DRLRFISEQE--NVKCDDGVLERILDISAG-DLRRGITLLQSASKGAQY--LGDGKNITSTQVEELA  235 (237)
T ss_dssp             HHHHHHHHTT--TCCCCHHHHHHHHHHTSS-CHHHHHHHHHHTHHHHHH--HCSCCCCCHHHHHHHH
T ss_pred             hhhhhhhhhh--cCcCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHhchh--cCCCCccCHHHHHHhh
Confidence            9999998776  445667777999998875 333333444444443322  2244678888877654

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.68  E-value=1.7e-05  Score=66.96  Aligned_cols=33  Identities=30%  Similarity=0.442  Sum_probs=28.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      ++-++|.|||||||||+|+.+++.++.+++..+
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l~~~~~~~d   38 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGD   38 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEEGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeechh
Confidence            556888999999999999999999998776543

>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=97.63  E-value=1.9e-06  Score=82.57  Aligned_cols=92  Identities=8%  Similarity=0.027  Sum_probs=64.4

Q ss_pred             EEEEe--eCHhHHh--ccccEEEeCCCCHHHHH-HHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHH
Q psy450           90 KKLVL--IRKQIQK--LFLKTINVLPLTEPERR-LLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKN  164 (478)
Q Consensus        90 v~via--ld~al~r--Rf~~~i~~~~P~~~~r~-~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~  164 (478)
                      +++..  +|.++.|  ||++.+++..|+...|. ++++.++++.  .+  ..+. +.++..+.|++|+|++.+++.++..
T Consensus       259 ~i~ttN~~~~~~~r~~Rf~~~i~~~~~~~~~~~~~~l~~i~~~~--~l--~~~~-~~L~~li~~~s~~D~~~~i~~~~~~  333 (362)
T d1svma_         259 GIVTMNEYSVPKTLQARFVKQIDFRPKDYLKHCLERSEFLLEKR--II--QSGI-ALLLMLIWYRPVAEFAQSIQSRIVE  333 (362)
T ss_dssp             EEEEECSCCCCHHHHTTEEEEEECCCCHHHHHHHHTCTHHHHTT--CT--TCHH-HHHHHHHHHSCGGGSCGGGHHHHHH
T ss_pred             ceeecccccccccccccCceEEeecCCCcHHHHHHHHHHHhccc--CC--CCCH-HHHHHHccCCCHHHHHHHHHHHHHH
Confidence            44444  6666666  99999999999877764 5555556554  22  3444 7788889999999999999988876


Q ss_pred             HHHhhcCCCCCCCHHHHHHHHHHhh
Q psy450          165 KMLKQGINKRDLQKEDFQQIYDDLQ  189 (478)
Q Consensus       165 a~~~~~~~~~~it~~d~~~a~~~~~  189 (478)
                      ...+   ....++...|......+.
T Consensus       334 ~~~~---l~~ei~~~~~~~~k~~I~  355 (362)
T d1svma_         334 WKER---LDKEFSLSVYQKMKFNVA  355 (362)
T ss_dssp             HHHH---HHHHCCHHHHHHHHHHHH
T ss_pred             HHHH---HhhhccHHHHHHHHHHHH
Confidence            6533   123466667766666554

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.61  E-value=1.7e-05  Score=66.80  Aligned_cols=28  Identities=25%  Similarity=0.406  Sum_probs=25.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      -|+|+|||||||||+|+.+++.++..++
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~~~~~~   31 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQLDNSAY   31 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSSEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCEE
Confidence            4889999999999999999999987644

>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=97.61  E-value=2.6e-05  Score=67.29  Aligned_cols=38  Identities=18%  Similarity=0.406  Sum_probs=30.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      |..|+|.|||||||||+|+.|++.+|.+.+  +..++...
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~~~~i--s~~~~~~~   40 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQLAHI--SAGDLLRA   40 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEEC--CHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHCCcEE--ehhHHHHH
Confidence            566999999999999999999999988754  45555443

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.60  E-value=2.5e-05  Score=65.98  Aligned_cols=28  Identities=39%  Similarity=0.544  Sum_probs=25.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN  261 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~  261 (478)
                      +.+|+|.||||+||||+++.|++.++..
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~~l~~~   32 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAAELDGF   32 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHSTTE
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHhCCC
Confidence            5569999999999999999999998653

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.57  E-value=1.7e-05  Score=67.48  Aligned_cols=24  Identities=33%  Similarity=0.606  Sum_probs=22.5

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ++|+|+||||||||++++.++..+
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            579999999999999999999887

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=97.53  E-value=0.00016  Score=58.48  Aligned_cols=35  Identities=20%  Similarity=0.190  Sum_probs=28.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEech
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGP  268 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~  268 (478)
                      .+..+|.+|+|+|||+++-.+....+..++.+...
T Consensus         8 ~~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~P~   42 (136)
T d1a1va1           8 FQVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPS   42 (136)
T ss_dssp             CEEEEEECCTTSCTTTHHHHHHHTTTCCEEEEESC
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEcCh
Confidence            34579999999999999877777778777776654

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.51  E-value=3.5e-05  Score=66.64  Aligned_cols=36  Identities=19%  Similarity=0.375  Sum_probs=29.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      |.-|++.||||+||||+|+.||+.+|...  ++..++.
T Consensus         6 p~iI~i~G~pGSGKsT~a~~La~~~g~~~--i~~g~~~   41 (194)
T d1qf9a_           6 PNVVFVLGGPGSGKGTQCANIVRDFGWVH--LSAGDLL   41 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHCCEE--EEHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHCCce--EchhhHH
Confidence            67789999999999999999999998754  4554544

>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=97.50  E-value=3.4e-05  Score=65.84  Aligned_cols=36  Identities=22%  Similarity=0.466  Sum_probs=29.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      .|+|.||||+||||+|+.||+.+|.+++.  ..++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~~~i~--~~~ll~~   37 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGIPHIS--TGDMFRA   37 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEE--HHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceec--hhHHHHH
Confidence            38999999999999999999999887654  4555443

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.45  E-value=1.2e-05  Score=69.40  Aligned_cols=31  Identities=26%  Similarity=0.393  Sum_probs=25.7

Q ss_pred             CCCCceEEEeCCCCChHHHHHHHHHHHhCCc
Q psy450          231 GLKRSGLLLYGPPGTGKTLIAKAVATECRMN  261 (478)
Q Consensus       231 ~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~  261 (478)
                      |.++.-|+|+|+||+||||+|+.|+..++.+
T Consensus        16 ~~~g~vI~L~G~pGSGKTTiAk~La~~l~~~   46 (195)
T d1x6va3          16 GFRGCTVWLTGLSGAGKTTVSMALEEYLVCH   46 (195)
T ss_dssp             SCCCEEEEEESSCHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3345668899999999999999999988543

>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=97.45  E-value=0.00013  Score=66.08  Aligned_cols=77  Identities=26%  Similarity=0.374  Sum_probs=48.3

Q ss_pred             CCCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhh-----hh-----------hhcchHHHHHHHHHH-
Q psy450          230 SGLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELL-----NK-----------YIGQSEENIRNVFLK-  288 (478)
Q Consensus       230 ~~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~-----~~-----------~~g~~~~~~~~~~~~-  288 (478)
                      .|.+ .+-..|+||||+|||+++-.++...   +..+++++...-.     ..           .....+..+ ++.+. 
T Consensus        49 GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~a~~~Gvd~d~v~~~~~~~~E~~~-~~i~~l  127 (263)
T d1u94a1          49 GGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQAL-EICDAL  127 (263)
T ss_dssp             SSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHH-HHHHHH
T ss_pred             CCccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHHHHHHhCCCHHHEEEecCCCHHHHH-HHHHHH
Confidence            3444 4557899999999999998887655   6677777753211     11           011122222 22233 


Q ss_pred             hHhCCCeEEEEcCCccccC
Q psy450          289 ARSAAPCVVFFDELDSLAP  307 (478)
Q Consensus       289 a~~~~p~il~iDeid~l~~  307 (478)
                      .+...++++++|-+..+.+
T Consensus       128 ~~~~~~~liViDSi~al~~  146 (263)
T d1u94a1         128 ARSGAVDVIVVDSVAALTP  146 (263)
T ss_dssp             HHHTCCSEEEEECGGGCCC
T ss_pred             HhcCCCCEEEEECcccccc
Confidence            3446678999999998874

>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=97.44  E-value=0.00013  Score=70.52  Aligned_cols=98  Identities=18%  Similarity=0.205  Sum_probs=67.3

Q ss_pred             CCCCCcccccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEec-hhhhhh---
Q psy450          201 VPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECR---MNFLAVKG-PELLNK---  273 (478)
Q Consensus       201 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~~-~~l~~~---  273 (478)
                      .+..++++++-.+.+.+.+++++..+       ..-+|+.||+|+||||++.++...+.   .+++.+.- .++.-.   
T Consensus       132 ~~~~~l~~LG~~~~~~~~l~~l~~~~-------~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~~~~~  204 (401)
T d1p9ra_         132 ATRLDLHSLGMTAHNHDNFRRLIKRP-------HGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIG  204 (401)
T ss_dssp             TTCCCGGGSCCCHHHHHHHHHHHTSS-------SEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCSSSE
T ss_pred             ccchhhhhhcccHHHHHHHHHHHhhh-------hceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCcccccCCCC
Confidence            34567889998888888888765433       34488999999999999999988773   44555532 121100   


Q ss_pred             ---hhcchHHHHHHHHHHhHhCCCeEEEEcCCccc
Q psy450          274 ---YIGQSEENIRNVFLKARSAAPCVVFFDELDSL  305 (478)
Q Consensus       274 ---~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l  305 (478)
                         ..+.........+..+....|.||++.|+-..
T Consensus       205 q~~v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd~  239 (401)
T d1p9ra_         205 QTQVNPRVDMTFARGLRAILRQDPDVVMVGEIRDL  239 (401)
T ss_dssp             EEECBGGGTBCHHHHHHHHGGGCCSEEEESCCCSH
T ss_pred             eeeecCCcCCCHHHHHHHHHhhcCCEEEecCcCCh
Confidence               01122223567788888999999999998643

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.43  E-value=0.0001  Score=62.43  Aligned_cols=35  Identities=20%  Similarity=0.252  Sum_probs=28.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l  270 (478)
                      |.-|++.|+|||||||+|+.++...+..  .++..++
T Consensus        14 p~liil~G~pGsGKST~a~~l~~~~~~~--~i~~D~~   48 (172)
T d1yj5a2          14 PEVVVAVGFPGAGKSTFIQEHLVSAGYV--HVNRDTL   48 (172)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHTGGGTCE--EEEHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhcCCE--EEchHHH
Confidence            6679999999999999999998877754  4554444

>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=97.43  E-value=4.7e-05  Score=65.02  Aligned_cols=36  Identities=33%  Similarity=0.540  Sum_probs=29.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      .|+|.|||||||||+|+.|++.+|...+  +..++...
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~~~i--~~~~l~~~   37 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGIPQI--STGELFRR   37 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCEE--EHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceE--chHHHHHH
Confidence            4889999999999999999999987765  44455433

>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=97.43  E-value=0.00033  Score=62.31  Aligned_cols=77  Identities=22%  Similarity=0.264  Sum_probs=50.3

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhh----hh------------------------hhcch
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELL----NK------------------------YIGQS  278 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~----~~------------------------~~g~~  278 (478)
                      |.+ ...++++||||+|||+++..++...   +.++.+++..+-.    ..                        .....
T Consensus        22 Gi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (242)
T d1tf7a2          22 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGL  101 (242)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSCHHHHHHHHHTTSCCHHHHHHTTSEEECCCCGGGSCH
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeeccCCHHHHHHHHHHcCCChHHHhhcCceEEEEeecchhhH
Confidence            444 4568999999999999999998776   5566666542110    00                        00112


Q ss_pred             HHHHHHHHHHhHhCCCeEEEEcCCccccC
Q psy450          279 EENIRNVFLKARSAAPCVVFFDELDSLAP  307 (478)
Q Consensus       279 ~~~~~~~~~~a~~~~p~il~iDeid~l~~  307 (478)
                      ...+..+........|.++++|.++.+..
T Consensus       102 ~~~~~~i~~~i~~~~~~~vviDs~~~~~~  130 (242)
T d1tf7a2         102 EDHLQIIKSEINDFKPARIAIDSLSALAR  130 (242)
T ss_dssp             HHHHHHHHHHHHTTCCSEEEEECHHHHTS
T ss_pred             HHHHHHHHHHHHhcCCceeeeecchhhhc
Confidence            22344445555667889999999998874

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.41  E-value=0.00022  Score=61.91  Aligned_cols=37  Identities=19%  Similarity=0.235  Sum_probs=28.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l  270 (478)
                      |.-|+++|.||+||||+|+.|++.+   +.+...++...+
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~~D~~   41 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQY   41 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEcccce
Confidence            4458899999999999999999877   445556665443

>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=97.39  E-value=4.8e-05  Score=64.33  Aligned_cols=27  Identities=26%  Similarity=0.303  Sum_probs=23.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      +..|+|+|+||+||||+|+++|+.++.
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            455889999999999999999999853

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.39  E-value=0.00022  Score=62.07  Aligned_cols=73  Identities=19%  Similarity=0.200  Sum_probs=46.9

Q ss_pred             CCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhhh-------h-------------hcchHHHHHHHHHHh
Q psy450          233 KRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLNK-------Y-------------IGQSEENIRNVFLKA  289 (478)
Q Consensus       233 ~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~~-------~-------------~g~~~~~~~~~~~~a  289 (478)
                      .|.-++|.||+|+||||.+--+|..+   +.++..+.+..+...       |             ..+....+......+
T Consensus         8 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~a   87 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQAA   87 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHHHHHH
Confidence            36678899999999999887788655   556666665333211       1             122334455566666


Q ss_pred             HhCCCeEEEEcCCccc
Q psy450          290 RSAAPCVVFFDELDSL  305 (478)
Q Consensus       290 ~~~~p~il~iDeid~l  305 (478)
                      +.....+|+||=....
T Consensus        88 ~~~~~d~ilIDTaGr~  103 (211)
T d2qy9a2          88 KARNIDVLIADTAGRL  103 (211)
T ss_dssp             HHTTCSEEEECCCCCG
T ss_pred             HHcCCCEEEeccCCCc
Confidence            6666679999975443

>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=97.38  E-value=6.2e-05  Score=64.78  Aligned_cols=35  Identities=29%  Similarity=0.464  Sum_probs=28.3

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      ..|+|.|||||||||.|+.||+.+|.++  ++..+++
T Consensus         4 ~riil~G~pGSGKsT~a~~La~~~g~~~--i~~gdll   38 (190)
T d1ak2a1           4 VRAVLLGPPGAGKGTQAPKLAKNFCVCH--LATGDML   38 (190)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEE--EEHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeE--EeHHHHH
Confidence            3477899999999999999999998665  5555554

>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=97.37  E-value=5.8e-05  Score=64.49  Aligned_cols=34  Identities=21%  Similarity=0.448  Sum_probs=28.1

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      .|+|.|||||||||+|+.||+.++.+.+.  ..+++
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g~~~is--~gdll   35 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYGTPHIS--TGDMF   35 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEE--HHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceee--HHHHH
Confidence            38899999999999999999999887654  44444

>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=97.36  E-value=6e-05  Score=64.35  Aligned_cols=35  Identities=26%  Similarity=0.496  Sum_probs=28.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      .|+|.||||+||||+|+.||+.+|.+.  ++..++..
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g~~~--i~~~d~~~   38 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFHAAH--LATGDMLR   38 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEE--EEHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCce--Eeccccce
Confidence            478899999999999999999998765  44445543

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=97.36  E-value=0.00034  Score=63.41  Aligned_cols=116  Identities=22%  Similarity=0.298  Sum_probs=67.8

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechh-----hhhhh-----------hcchHHHHHHHHHHh-
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPE-----LLNKY-----------IGQSEENIRNVFLKA-  289 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~-----l~~~~-----------~g~~~~~~~~~~~~a-  289 (478)
                      |.+ ++-..++||+|||||++|..++...   |..+++++...     +...+           ....+..+ ++.+.. 
T Consensus        53 Gip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~-~~~~~l~  131 (268)
T d1xp8a1          53 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQAL-EIMELLV  131 (268)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHH-HHHHHHH
T ss_pred             CccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHH-HHHHHHH
Confidence            444 5567899999999999998886554   66788887532     11111           11223222 333333 


Q ss_pred             HhCCCeEEEEcCCccccCCCCCCCC----CchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCC
Q psy450          290 RSAAPCVVFFDELDSLAPRRGQEDQ----SSGVMDRVVSQLLAEMDGVHTSQDVFILGATNR  347 (478)
Q Consensus       290 ~~~~p~il~iDeid~l~~~~~~~~~----~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~  347 (478)
                      ....+.++++|-+..+.++..-.+.    ..+...+.+..++..+.......++.+|++..-
T Consensus       132 ~~~~~~liIiDSi~al~~r~e~~~~~~~~~~~~~a~~l~~~lr~l~~~~~~~~~~vi~tNQv  193 (268)
T d1xp8a1         132 RSGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTAILSKTGTAAIFINQV  193 (268)
T ss_dssp             TTTCCSEEEEECTTTCCCSTTC--------CCHHHHHHHHHHHHHHHHHTTTCCEEEEEEEC
T ss_pred             hcCCCcEEEEecccccccHHHHcccccchhHHHHHHHHHHHHHHHHhhhhhcCCeEEEEeEE
Confidence            3456789999999999865432211    112234555565555554445566777776443

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.35  E-value=0.0003  Score=62.07  Aligned_cols=120  Identities=11%  Similarity=0.122  Sum_probs=78.5

Q ss_pred             CCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------eCHhHHhccccEEEeCCCCHHHHH
Q psy450           45 LDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------IRKQIQKLFLKTINVLPLTEPERR  118 (478)
Q Consensus        45 p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------ld~al~rRf~~~i~~~~P~~~~r~  118 (478)
                      ..|++|||+|.+... ..+.++..|+..             ....++++.      +++++++|+ ..+.|+.|+.++..
T Consensus       100 ~kiiiiDe~d~~~~~-~~~~Ll~~le~~-------------~~~~~~~~~~~~~~~i~~~i~sr~-~~i~~~~~~~~~i~  164 (227)
T d1sxjc2         100 FKLIILDEADAMTNA-AQNALRRVIERY-------------TKNTRFCVLANYAHKLTPALLSQC-TRFRFQPLPQEAIE  164 (227)
T ss_dssp             CEEEEETTGGGSCHH-HHHHHHHHHHHT-------------TTTEEEEEEESCGGGSCHHHHTTS-EEEECCCCCHHHHH
T ss_pred             eEEEEEeccccchhh-HHHHHHHHhhhc-------------ccceeeccccCcHHHhHHHHHHHH-hhhccccccccccc
Confidence            459999999988654 356666666631             122233333      999999998 67899999999999


Q ss_pred             HHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Q psy450          119 LLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIY  185 (478)
Q Consensus       119 ~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~  185 (478)
                      .++...+...  ....+.+.++.+++.+.|    |++.++..--.............|+.+++.+++
T Consensus       165 ~~l~~I~~~e--~i~i~~~~l~~i~~~s~G----d~R~ain~Lq~~~~~~~~~~~~~It~~~v~e~~  225 (227)
T d1sxjc2         165 RRIANVLVHE--KLKLSPNAEKALIELSNG----DMRRVLNVLQSCKATLDNPDEDEISDDVIYECC  225 (227)
T ss_dssp             HHHHHHHHTT--TCCBCHHHHHHHHHHHTT----CHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHT
T ss_pred             cccccccccc--cccCCHHHHHHHHHHcCC----cHHHHHHHHHHHHHhcCCCCCCeeCHHHHHHHh
Confidence            9999988765  344555656899998876    555544311110000122245678888776654

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.34  E-value=8.5e-05  Score=61.09  Aligned_cols=35  Identities=23%  Similarity=0.392  Sum_probs=26.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      -|+++||||+||||+|+.++.... ....++..++.
T Consensus         4 lIii~G~pGsGKTTla~~L~~~~~-~~~~~~~d~~~   38 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAKNP-GFYNINRDDYR   38 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHST-TEEEECHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCC-CCEEechHHHH
Confidence            378899999999999999876553 35566655543

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.34  E-value=6e-05  Score=65.24  Aligned_cols=35  Identities=23%  Similarity=0.448  Sum_probs=28.4

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      .-|+|.||||+||||+|+.|++.+|...  ++..+++
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~~~g~~~--is~gdl~   43 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVKDYSFVH--LSAGDLL   43 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSCEE--EEHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeE--EehhHHH
Confidence            3578899999999999999999998755  4555554

>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=97.34  E-value=6.4e-05  Score=64.81  Aligned_cols=36  Identities=19%  Similarity=0.462  Sum_probs=29.3

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      -.|+|.||||+||||+|+.||+.+|..+  ++..+++.
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~g~~~--is~gdllr   42 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHFELKH--LSSGDLLR   42 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHBCCEE--EEHHHHHH
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHHCCeE--EcHHHHHH
Confidence            3588899999999999999999998665  55556553

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=97.34  E-value=0.00047  Score=60.96  Aligned_cols=115  Identities=11%  Similarity=0.143  Sum_probs=77.1

Q ss_pred             hcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-------eCHhHHhccccEEEeCCCCH
Q psy450           42 KYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-------IRKQIQKLFLKTINVLPLTE  114 (478)
Q Consensus        42 ~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-------ld~al~rRf~~~i~~~~P~~  114 (478)
                      ...+.|+++||+|.+.... .+.++..++.              ....+.+|.       +++++++|+ ..+.++.|+.
T Consensus       107 ~~~~~iilide~d~~~~~~-~~~ll~~l~~--------------~~~~~~~i~~~n~~~~i~~~l~sR~-~~i~~~~~~~  170 (231)
T d1iqpa2         107 GASFKIIFLDEADALTQDA-QQALRRTMEM--------------FSSNVRFILSCNYSSKIIEPIQSRC-AIFRFRPLRD  170 (231)
T ss_dssp             GCSCEEEEEETGGGSCHHH-HHHHHHHHHH--------------TTTTEEEEEEESCGGGSCHHHHHTE-EEEECCCCCH
T ss_pred             CCCceEEeehhhhhcchhH-HHHHhhhccc--------------CCcceEEEeccCChhhchHhHhCcc-ccccccccch
Confidence            3467899999999887654 3445555552              223344444       899999999 5699999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHH
Q psy450          115 PERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQ  183 (478)
Q Consensus       115 ~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~  183 (478)
                      .+...+++..+.+.  .+..+.+.++.+++...| +.++.-+.++.+    .    .....++.+++..
T Consensus       171 ~~~~~~l~~~~~~e--~i~i~~~~l~~I~~~~~g-diR~ai~~Lq~~----~----~~~~~it~e~v~~  228 (231)
T d1iqpa2         171 EDIAKRLRYIAENE--GLELTEEGLQAILYIAEG-DMRRAINILQAA----A----ALDKKITDENVFM  228 (231)
T ss_dssp             HHHHHHHHHHHHTT--TCEECHHHHHHHHHHHTT-CHHHHHHHHHHH----H----TTCSEECHHHHHH
T ss_pred             hhHHHHHHHHHHHh--CCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH----H----HcCCCcCHHHHHh
Confidence            99999999999876  344455566999988775 333333333222    1    1245677776643

>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=97.34  E-value=6.6e-05  Score=64.89  Aligned_cols=38  Identities=18%  Similarity=0.364  Sum_probs=30.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      +.-|+|.|||||||||+|+.||+.+|.+.  ++..+++..
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~g~~~--is~g~llr~   45 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKYGYTH--LSTGDLLRA   45 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHTCCEE--EEHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCee--EeccHHHHH
Confidence            55688999999999999999999998655  566666544

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.34  E-value=7.1e-05  Score=64.54  Aligned_cols=37  Identities=22%  Similarity=0.360  Sum_probs=29.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLN  272 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~  272 (478)
                      |.-|+|.||||+||||.|+.||+.+|...  ++..+++.
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~g~~~--i~~g~llR   37 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKYGYTH--LSAGELLR   37 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEE--EEHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCce--EcHHHHHH
Confidence            34589999999999999999999997654  55555543

>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=97.28  E-value=8e-05  Score=63.37  Aligned_cols=34  Identities=21%  Similarity=0.376  Sum_probs=27.8

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      .|+|.||||+||||.|+.|++.++..++  +..++.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~~~i--~~~~ll   35 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGIPQI--STGDML   35 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEE--EHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcee--chhhHh
Confidence            3789999999999999999999987655  444443

>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=97.27  E-value=0.00064  Score=59.01  Aligned_cols=34  Identities=32%  Similarity=0.290  Sum_probs=25.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      ++-++|.||+|+||||.+--+|..+   +.++..+++
T Consensus        10 ~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~   46 (207)
T d1ls1a2          10 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAA   46 (207)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEec
Confidence            4447889999999999888887665   566666655

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.26  E-value=0.00087  Score=59.89  Aligned_cols=120  Identities=13%  Similarity=0.021  Sum_probs=75.4

Q ss_pred             cCCCeEEEecccccccch--hhHhhhccccccccccccchhhhccCCCcEEEEe------eCHhHHhccccEEEeCCCCH
Q psy450           43 YNLDIFKYDEVNYLCNVK--YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------IRKQIQKLFLKTINVLPLTE  114 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r--~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------ld~al~rRf~~~i~~~~P~~  114 (478)
                      ..+.|+++||+|.+....  ....++....              .....+++++      ..+. .||+...|+|+.|+.
T Consensus       122 ~~~~vi~ide~~~~~~~~~~~~~~~~~~~~--------------~~~~~ii~i~~~~~~~~~~~-l~~~~~~i~f~~~~~  186 (253)
T d1sxja2         122 GKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--------------KTSTPLILICNERNLPKMRP-FDRVCLDIQFRRPDA  186 (253)
T ss_dssp             TTSEEEEECSGGGCCTTSTTHHHHHHHHHH--------------HCSSCEEEEESCTTSSTTGG-GTTTSEEEECCCCCH
T ss_pred             ccceEEEeeeccccccchhhhhHHHhhhhc--------------cccccccccccccccccccc-ccceeeeeeccccch
Confidence            457899999999887644  2222222211              2344577777      1222 345668999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHh
Q psy450          115 PERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDL  188 (478)
Q Consensus       115 ~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a~~~~  188 (478)
                      +++..+++..+.+.+..+  +.+.++.++..+.|    |++.++........     ....++.+++.+..+..
T Consensus       187 ~~i~~~l~~i~~~e~i~i--~~~~l~~i~~~s~G----DiR~ai~~L~~~~~-----~~~~i~~~~~~~~~~~~  249 (253)
T d1sxja2         187 NSIKSRLMTIAIREKFKL--DPNVIDRLIQTTRG----DIRQVINLLSTIST-----TTKTINHENINEISKAW  249 (253)
T ss_dssp             HHHHHHHHHHHHHHTCCC--CTTHHHHHHHHTTT----CHHHHHHHHTHHHH-----HSSCCCTTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhCCCC--CHHHHHHHHHhCCC----cHHHHHHHHHHHHH-----cCCCCCHHHHHHHhchh
Confidence            999999999997653344  33445999998765    77776543211111     23457777766555443

>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=97.23  E-value=0.00085  Score=58.28  Aligned_cols=71  Identities=17%  Similarity=0.042  Sum_probs=38.6

Q ss_pred             CCceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhhhh-------hh-------------hcchHHHHHHHHHHh
Q psy450          233 KRSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPELLN-------KY-------------IGQSEENIRNVFLKA  289 (478)
Q Consensus       233 ~~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l~~-------~~-------------~g~~~~~~~~~~~~a  289 (478)
                      .|.-++|.||+|+||||.+--+|..+   +.++..+++..+..       .|             ..+....+......+
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a~~~~   90 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKF   90 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchhHHHHHhccccCcceeecccchhhhHHHHHHHHHh
Confidence            37778999999999999877777655   45555555422211       10             111233334444444


Q ss_pred             HhCCCeEEEEcCCc
Q psy450          290 RSAAPCVVFFDELD  303 (478)
Q Consensus       290 ~~~~p~il~iDeid  303 (478)
                      +.....+|+||=..
T Consensus        91 ~~~~~d~IlIDTaG  104 (211)
T d1j8yf2          91 LSEKMEIIIVDTAG  104 (211)
T ss_dssp             HHTTCSEEEEECCC
T ss_pred             hccCCceEEEecCC
Confidence            55566799999643

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=97.21  E-value=0.00011  Score=64.70  Aligned_cols=34  Identities=24%  Similarity=0.455  Sum_probs=28.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      -|.+.|||||||+|.|+.||+.+|.++  ++..++.
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl~~--iStGdLl   38 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQWHL--LDSGAIY   38 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEE--EEHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcE--ECHHHHH
Confidence            477889999999999999999998766  4555554

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.21  E-value=0.00041  Score=62.77  Aligned_cols=116  Identities=23%  Similarity=0.293  Sum_probs=63.7

Q ss_pred             CCCC-CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechh-----hhhhh----------hcchHHHHHHHHHHh-
Q psy450          230 SGLK-RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPE-----LLNKY----------IGQSEENIRNVFLKA-  289 (478)
Q Consensus       230 ~~~~-~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~-----l~~~~----------~g~~~~~~~~~~~~a-  289 (478)
                      .|.+ .+-..|+||||+|||++|-.++...   +..+++++...     .....          ...+...+-++.+.. 
T Consensus        55 gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~  134 (269)
T d1mo6a1          55 GGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLI  134 (269)
T ss_dssp             SSBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHH
T ss_pred             CCcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHH
Confidence            3555 5567899999999999987765543   67778887532     11110          011122222233332 


Q ss_pred             HhCCCeEEEEcCCccccCCCC----CCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEc
Q psy450          290 RSAAPCVVFFDELDSLAPRRG----QEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGAT  345 (478)
Q Consensus       290 ~~~~p~il~iDeid~l~~~~~----~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~tt  345 (478)
                      ....+++|++|-+..+.++..    .....-+...+.+..++..+.......++.+|++.
T Consensus       135 ~~~~~~liIiDSi~al~~~~E~e~~~~~~~~~~~a~~l~~~l~~l~~~~~~~~~~vi~~N  194 (269)
T d1mo6a1         135 RSGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFIN  194 (269)
T ss_dssp             HTTCEEEEEEECSTTCCCHHHHC-------CCHHHHHHHHHHHHHHHHHHHHTCEEEEEE
T ss_pred             hcCCCCEEEEecccccccHHHhccccccchHHHHHHHHHHHHHHHHHHHhhcCchhhhhh
Confidence            345678999999999986321    11111122234455555544433334456777663

>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=97.19  E-value=0.00057  Score=64.75  Aligned_cols=34  Identities=26%  Similarity=0.306  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHH
Q psy450          213 SKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA  255 (478)
Q Consensus       213 ~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la  255 (478)
                      +.++..+...+.         .+-.+++||||||||+++..+.
T Consensus       151 ~~Q~~A~~~al~---------~~~~vI~G~pGTGKTt~i~~~l  184 (359)
T d1w36d1         151 NWQKVAAAVALT---------RRISVISGGPGTGKTTTVAKLL  184 (359)
T ss_dssp             CHHHHHHHHHHT---------BSEEEEECCTTSTHHHHHHHHH
T ss_pred             cHHHHHHHHHHc---------CCeEEEEcCCCCCceehHHHHH
Confidence            345555554442         2348999999999999875543

>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=97.19  E-value=0.003  Score=54.99  Aligned_cols=101  Identities=15%  Similarity=0.273  Sum_probs=72.0

Q ss_pred             CCCeEEEecccccccch-hhHhhhccccccccccccchhhhccCCCcEEEEe---------eCHhHHhccc--cEEEeCC
Q psy450           44 NLDIFKYDEVNYLCNVK-YVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL---------IRKQIQKLFL--KTINVLP  111 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r-~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via---------ld~al~rRf~--~~i~~~~  111 (478)
                      .-++|+||++|.+.++. .-..+...++...           ..+..+++.+         +.|.+++||.  ..+.++ 
T Consensus        97 ~~dll~iDDi~~i~~~~~~~~~lf~lin~~~-----------~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-  164 (213)
T d1l8qa2          97 SVDLLLLDDVQFLSGKERTQIEFFHIFNTLY-----------LLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-  164 (213)
T ss_dssp             TCSEEEEECGGGGTTCHHHHHHHHHHHHHHH-----------HTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-
T ss_pred             hccchhhhhhhhhcCchHHHHHHHHHHHHHh-----------hccceEEEecCCcchhccccchHHHHHhhCceEEEEC-
Confidence            57899999999999876 2333444555321           3445555555         5688888875  466776 


Q ss_pred             CCHHHHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHH
Q psy450          112 LTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRL  160 (478)
Q Consensus       112 P~~~~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~  160 (478)
                      |+.++|.++++.+....  .+..+.+.+++|++++.  +.+++..+++.
T Consensus       165 p~d~~~~~iL~~~a~~r--gl~l~~~v~~yl~~~~~--~~R~L~~~l~~  209 (213)
T d1l8qa2         165 LDNKTRFKIIKEKLKEF--NLELRKEVIDYLLENTK--NVREIEGKIKL  209 (213)
T ss_dssp             CCHHHHHHHHHHHHHHT--TCCCCHHHHHHHHHHCS--SHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHc--CCCCCHHHHHHHHHhcC--cHHHHHHHHHH
Confidence            67789999999999877  45566777799999874  56777776654

>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=97.17  E-value=0.00012  Score=64.48  Aligned_cols=33  Identities=24%  Similarity=0.548  Sum_probs=26.6

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhh
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL  271 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~  271 (478)
                      |.+.||||+||||+|+.||+++|.+++  +..++.
T Consensus         6 IaIdGp~GsGKgT~ak~La~~lg~~~i--stGdl~   38 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDFGFTYL--DTGAMY   38 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHHCCEEE--EHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEE--CHHHHH
Confidence            556799999999999999999988754  444443

>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=97.17  E-value=0.0011  Score=57.37  Aligned_cols=34  Identities=21%  Similarity=0.251  Sum_probs=25.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      ++-++|.||+|+||||.+--+|..+   |.++..++.
T Consensus         6 ~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~   42 (207)
T d1okkd2           6 GRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAG   42 (207)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEe
Confidence            5668999999999999877777655   555555554

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.12  E-value=0.00086  Score=59.84  Aligned_cols=94  Identities=11%  Similarity=0.107  Sum_probs=65.6

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-------eCHhHHhccccEEEeCCCCHHH
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-------IRKQIQKLFLKTINVLPLTEPE  116 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-------ld~al~rRf~~~i~~~~P~~~~  116 (478)
                      ...+++|||+|.+.... .+.++..++.              ....+.+|.       +++++++|| ..|+|+.|+.++
T Consensus       131 ~~~iiiide~d~l~~~~-~~~l~~~~e~--------------~~~~~~~Il~tn~~~~i~~~l~sR~-~~i~~~~~~~~~  194 (252)
T d1sxje2         131 RYKCVIINEANSLTKDA-QAALRRTMEK--------------YSKNIRLIMVCDSMSPIIAPIKSQC-LLIRCPAPSDSE  194 (252)
T ss_dssp             CCEEEEEECTTSSCHHH-HHHHHHHHHH--------------STTTEEEEEEESCSCSSCHHHHTTS-EEEECCCCCHHH
T ss_pred             CceEEEecccccccccc-chhhhccccc--------------ccccccceeeeccccchhhhhhcch-heeeecccchhh
Confidence            34699999999986554 4455555552              233333333       899999999 689999999999


Q ss_pred             HHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHH
Q psy450          117 RRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLV  158 (478)
Q Consensus       117 r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~  158 (478)
                      ..++++..+...+.....+ +.++.++..+.|    |++.++
T Consensus       195 ~~~~l~~i~~~e~~~~~~~-~~l~~i~~~s~G----d~R~ai  231 (252)
T d1sxje2         195 ISTILSDVVTNERIQLETK-DILKRIAQASNG----NLRVSL  231 (252)
T ss_dssp             HHHHHHHHHHHHTCEECCS-HHHHHHHHHHTT----CHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCcH-HHHHHHHHHcCC----cHHHHH
Confidence            9999998886643333333 344889988776    565544

>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=97.04  E-value=0.00093  Score=58.12  Aligned_cols=34  Identities=21%  Similarity=0.212  Sum_probs=25.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      |.-++|.||+|+||||.+--+|..+   +.++..+.+
T Consensus        11 p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~   47 (213)
T d1vmaa2          11 PFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAA   47 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEee
Confidence            6678999999999999877777655   555555554

>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=96.94  E-value=0.00042  Score=61.46  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=20.8

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+-|.||+|+||||++++++...
T Consensus        30 e~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhcCC
Confidence            347899999999999999998754

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.93  E-value=0.00039  Score=60.67  Aligned_cols=39  Identities=18%  Similarity=0.285  Sum_probs=32.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh----CCcEEEEechhhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC----RMNFLAVKGPELLN  272 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~----~~~~~~v~~~~l~~  272 (478)
                      +.-|+|+|.||+||||+|+.+++.+    +.+++.+++..+..
T Consensus        24 g~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~iR~   66 (208)
T d1m7ga_          24 GLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIRF   66 (208)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHHHH
Confidence            5669999999999999999998765    67888888876643

>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=96.92  E-value=0.00047  Score=61.40  Aligned_cols=25  Identities=20%  Similarity=0.320  Sum_probs=21.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...+.+.||+|+||||+++.+...+
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcC
Confidence            3458899999999999999998765

>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=96.91  E-value=0.0028  Score=55.38  Aligned_cols=115  Identities=10%  Similarity=0.047  Sum_probs=74.6

Q ss_pred             CCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------eCHhHHhccccEEEeCCCCHHHH
Q psy450           44 NLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------IRKQIQKLFLKTINVLPLTEPER  117 (478)
Q Consensus        44 ~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------ld~al~rRf~~~i~~~~P~~~~r  117 (478)
                      ..-|++|||+|.+.... .+.++..++.             .....++++.      +.+++++|+ ..|.|+.|+.++.
T Consensus       101 ~~kviiiDe~d~~~~~~-~~~ll~~~e~-------------~~~~~~~i~~~~~~~~i~~~l~sr~-~~i~~~~~~~~~i  165 (224)
T d1sxjb2         101 KHKIVILDEADSMTAGA-QQALRRTMEL-------------YSNSTRFAFACNQSNKIIEPLQSQC-AILRYSKLSDEDV  165 (224)
T ss_dssp             CCEEEEEESGGGSCHHH-HHTTHHHHHH-------------TTTTEEEEEEESCGGGSCHHHHTTS-EEEECCCCCHHHH
T ss_pred             ceEEEEEecccccchhH-HHHHhhhccc-------------cccceeeeeccCchhhhhhHHHHHH-HHhhhcccchhhh
Confidence            34599999999887654 3445555552             1222233333      899999999 6799999999999


Q ss_pred             HHHHHHHHhhcCCCCCCChhHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHH
Q psy450          118 RLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQI  184 (478)
Q Consensus       118 ~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~s~~di~~l~~~a~~~a~~~~~~~~~~it~~d~~~a  184 (478)
                      ..++...+.+.  ....+.+.++.++....|    |++.++..--....     ....++.+++...
T Consensus       166 ~~~l~~i~~~e--~~~i~~~~l~~I~~~s~G----d~R~ai~~Lq~~~~-----~~~~i~~~~i~~~  221 (224)
T d1sxjb2         166 LKRLLQIIKLE--DVKYTNDGLEAIIFTAEG----DMRQAINNLQSTVA-----GHGLVNADNVFKI  221 (224)
T ss_dssp             HHHHHHHHHHH--TCCBCHHHHHHHHHHHTT----CHHHHHHHHHHHHH-----HHSSBCHHHHHHH
T ss_pred             HHHHHHHHHhc--ccCCCHHHHHHHHHHcCC----cHHHHHHHHHHHHH-----cCCCcCHHHHHHH
Confidence            99999999776  344566666888887764    44444332211111     2345676665544

>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=96.91  E-value=0.00042  Score=58.54  Aligned_cols=26  Identities=23%  Similarity=0.372  Sum_probs=22.7

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      +-|+|.|+||+||||+++.+++.++.
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~   27 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRK   27 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            34889999999999999999998743

>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=96.90  E-value=0.00095  Score=59.76  Aligned_cols=25  Identities=28%  Similarity=0.407  Sum_probs=21.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...+.+.||+|+||||+++.+...+
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhccc
Confidence            3458899999999999999998754

>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=96.90  E-value=0.00066  Score=59.68  Aligned_cols=23  Identities=35%  Similarity=0.572  Sum_probs=20.6

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -+-|.||+|+||||++++++.-.
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            47899999999999999999855

>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=96.89  E-value=0.0004  Score=57.80  Aligned_cols=31  Identities=26%  Similarity=0.184  Sum_probs=25.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh---CCcEEEEe
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC---RMNFLAVK  266 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~  266 (478)
                      -+.++|+||||||||++.+++.+   |..+..+.
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~   37 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIK   37 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEec
Confidence            37899999999999999999876   55554444

>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=96.86  E-value=0.00053  Score=63.97  Aligned_cols=69  Identities=14%  Similarity=0.234  Sum_probs=46.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC--CcEEEEe-chhhhh-------hhhcchHHHHHHHHHHhHhCCCeEEEEcCC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR--MNFLAVK-GPELLN-------KYIGQSEENIRNVFLKARSAAPCVVFFDEL  302 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~--~~~~~v~-~~~l~~-------~~~g~~~~~~~~~~~~a~~~~p~il~iDei  302 (478)
                      ..++++.||+|+||||++++++....  ..++.+. ..++.-       ...+...-...+++..+....|..|++.|+
T Consensus       166 ~~nili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~~lR~~pd~iivgEi  244 (323)
T d1g6oa_         166 GKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGEL  244 (323)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEESCC
T ss_pred             CCCEEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccchhHHHHHHHHhccCCCcccCCcc
Confidence            45699999999999999999998773  3344442 222210       011112223566788888899999999997

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=96.85  E-value=0.001  Score=53.14  Aligned_cols=34  Identities=29%  Similarity=0.363  Sum_probs=21.9

Q ss_pred             CceEEEeCCCCChHHHHHH-HHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAK-AVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~-~la~~~---~~~~~~v~~  267 (478)
                      ...++|.+|+|+|||..+- ++....   +..++.+..
T Consensus         7 ~~~~il~~~tGsGKT~~~~~~~~~~~~~~~~~vli~~p   44 (140)
T d1yksa1           7 GMTTVLDFHPGAGKTRRFLPQILAECARRRLRTLVLAP   44 (140)
T ss_dssp             TCEEEECCCTTSSTTTTHHHHHHHHHHHTTCCEEEEES
T ss_pred             CCcEEEEcCCCCChhHHHHHHHHHHhhhcCceeeeeec
Confidence            5678999999999996653 333322   444444443

>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=96.85  E-value=0.00054  Score=60.45  Aligned_cols=24  Identities=25%  Similarity=0.451  Sum_probs=20.8

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+-|.||+||||||+++.++...
T Consensus        27 ei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhcCC
Confidence            347899999999999999998754

>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=96.84  E-value=0.0013  Score=57.64  Aligned_cols=34  Identities=26%  Similarity=0.204  Sum_probs=25.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH----hCCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE----CRMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~----~~~~~~~v~~  267 (478)
                      +.-++|+|+||+|||+++..++..    .+..+++++.
T Consensus        26 G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~   63 (242)
T d1tf7a1          26 GRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTF   63 (242)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccc
Confidence            556889999999999998766432    2556666654

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.81  E-value=0.00046  Score=58.97  Aligned_cols=33  Identities=24%  Similarity=0.302  Sum_probs=25.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC---CcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR---MNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~---~~~~~v~  266 (478)
                      |.-|-+.||+|+||||+|+.|++.++   .....+.
T Consensus        22 ~~iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~   57 (198)
T d1rz3a_          22 RLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFH   57 (198)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhccccccceecc
Confidence            44466999999999999999998764   3444444

>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=96.78  E-value=0.0013  Score=57.91  Aligned_cols=25  Identities=20%  Similarity=0.367  Sum_probs=21.1

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...+-|.||+||||||+++.++...
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCcchhhHhccCCC
Confidence            3457899999999999999998744

>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=96.71  E-value=0.0017  Score=58.03  Aligned_cols=25  Identities=28%  Similarity=0.403  Sum_probs=21.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...+-|.||+||||||+++.++...
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            3458899999999999999998755

>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=96.70  E-value=0.0016  Score=58.31  Aligned_cols=25  Identities=16%  Similarity=0.270  Sum_probs=21.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ..-+.+.||+|+||||+++.++...
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            3458899999999999999997654

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.70  E-value=0.00068  Score=60.02  Aligned_cols=24  Identities=38%  Similarity=0.491  Sum_probs=21.0

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+-|.||+||||||+++.++...
T Consensus        33 e~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          33 EFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHHcCC
Confidence            347899999999999999998855

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.65  E-value=0.00039  Score=61.70  Aligned_cols=24  Identities=29%  Similarity=0.459  Sum_probs=21.1

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+-|.||+||||||++++++...
T Consensus        32 e~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCc
Confidence            458899999999999999999854

>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=96.60  E-value=0.00082  Score=56.91  Aligned_cols=31  Identities=23%  Similarity=0.228  Sum_probs=25.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCC---cEEEEe
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRM---NFLAVK  266 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~---~~~~v~  266 (478)
                      -++|.|+||+||||+++.+++.++.   .+..+.
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~~~~~~~~~~   36 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDNQGINNKIIN   36 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE
Confidence            3688999999999999999998854   444444

>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=96.58  E-value=0.0021  Score=58.22  Aligned_cols=34  Identities=12%  Similarity=0.079  Sum_probs=26.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHH----hCCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATE----CRMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~----~~~~~~~v~~  267 (478)
                      ..-+++.|+||+|||+++..++..    .|.++.+++.
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~   72 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAML   72 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEES
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeee
Confidence            345789999999999998888753    2677777764

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.52  E-value=0.00081  Score=57.35  Aligned_cols=27  Identities=33%  Similarity=0.608  Sum_probs=23.7

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNF  262 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~  262 (478)
                      .|+|.||+|+|||++++.++++....+
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~~~~~   29 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCcce
Confidence            489999999999999999999876544

>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=96.50  E-value=0.0012  Score=58.36  Aligned_cols=77  Identities=16%  Similarity=0.192  Sum_probs=46.0

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh---------CCcEEEEechhhh-----h---hhh-----------------
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC---------RMNFLAVKGPELL-----N---KYI-----------------  275 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~---------~~~~~~v~~~~l~-----~---~~~-----------------  275 (478)
                      |.+ ..-++|+||||||||+++..++...         +.+.++++...-.     .   ...                 
T Consensus        30 Gi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (251)
T d1szpa2          30 GVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAY  109 (251)
T ss_dssp             SEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGGHHHHHHTCCCHHHHGGGEEEEECC
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHHHHHHHhcCCchhhhhcceEEEecc
Confidence            455 5568999999999999999886542         3456666542110     0   000                 


Q ss_pred             --cchHHHHHHHHHHhHhCCCeEEEEcCCccccC
Q psy450          276 --GQSEENIRNVFLKARSAAPCVVFFDELDSLAP  307 (478)
Q Consensus       276 --g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~  307 (478)
                        ..................+.++++|.+..+..
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~~ds~~~~~~  143 (251)
T d1szpa2         110 NADHQLRLLDAAAQMMSESRFSLIVVDSVMALYR  143 (251)
T ss_dssp             STTTHHHHHHHTHHHHHHSCEEEEEEETGGGGGS
T ss_pred             chhHHHHHHHHHHHHhhccccceeeehhhhhhhh
Confidence              11112223334444556678889999887764

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.47  E-value=0.001  Score=56.89  Aligned_cols=28  Identities=32%  Similarity=0.481  Sum_probs=24.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      .|+|.||+|+|||++++.+++..+..+.
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~~   29 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIFG   29 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCcee
Confidence            3899999999999999999998875543

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.33  E-value=0.0043  Score=56.26  Aligned_cols=58  Identities=10%  Similarity=0.032  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh------CCcEEEEechhh
Q psy450          213 SKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC------RMNFLAVKGPEL  270 (478)
Q Consensus       213 ~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~------~~~~~~v~~~~l  270 (478)
                      +.+.+.+...+.......+..|--|-|.|++||||||++..+...+      ...+..++..++
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Ddf   69 (286)
T d1odfa_           6 DYTIEFLDKYIPEWFETGNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   69 (286)
T ss_dssp             HHHHHHHHHHHHHHHTTTCCSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCC
Confidence            3444555555554444444336556689999999999999887665      345666666555

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.21  E-value=0.0068  Score=51.93  Aligned_cols=19  Identities=47%  Similarity=0.655  Sum_probs=16.1

Q ss_pred             CceEEEeCCCCChHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAK  252 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~  252 (478)
                      .+++++.+|+|+|||+++-
T Consensus        40 ~~~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          40 GKNLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             CSCEEEECSSHHHHHHHHH
T ss_pred             CCCEEEEcCCCCchhHHHH
Confidence            4469999999999998764

>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=96.17  E-value=0.02  Score=50.25  Aligned_cols=103  Identities=17%  Similarity=0.132  Sum_probs=53.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh-----CCc--------------EEEEechhhhhhh---hcchHHHHHHHHHHhHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC-----RMN--------------FLAVKGPELLNKY---IGQSEENIRNVFLKARS  291 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~-----~~~--------------~~~v~~~~l~~~~---~g~~~~~~~~~~~~a~~  291 (478)
                      .+.++|+||..+|||+++|.++-..     |..              +..+...+-....   ....-..+..+++.+..
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d~I~~~~~~~d~~~~~~S~F~~E~~~~~~il~~~~~  120 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANILHNATE  120 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCCEEEEEEC-----------CHHHHHHHHHHHHHCCT
T ss_pred             ceEEEEeccCchhhHHHHHHHHHHHHHHHcCCeEecCceecccchhheeEEccCcccccchhHHHHHHHHHHHHHHhccc
Confidence            3568999999999999999997643     221              1222222221111   11222345566665543


Q ss_pred             CCCeEEEEcCCccccCCCCCCCCCchhHHHHHHHHHHhhcCCCCCCCeEEEEEcCCCC
Q psy450          292 AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD  349 (478)
Q Consensus       292 ~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vI~ttn~~~  349 (478)
                        .+++++||+-+=..        ......+...++..+.   ...+..+|.||...+
T Consensus       121 --~sLvliDE~~~gT~--------~~eg~~l~~a~l~~l~---~~~~~~~i~tTH~~~  165 (234)
T d1wb9a2         121 --YSLVLMDEIGRGTS--------TYDGLSLAWACAENLA---NKIKALTLFATHYFE  165 (234)
T ss_dssp             --TEEEEEESCCCCSS--------SSHHHHHHHHHHHHHH---HTTCCEEEEECSCGG
T ss_pred             --ccEEeecccccCCC--------hhhhhHHHHHhhhhhh---ccccceEEEecchHH
Confidence              47999999744221        1112234444454442   123456677776544

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.15  E-value=0.024  Score=48.56  Aligned_cols=56  Identities=21%  Similarity=0.121  Sum_probs=38.0

Q ss_pred             cccCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEec-hhhhh
Q psy450          208 DIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG-PELLN  272 (478)
Q Consensus       208 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~-~~l~~  272 (478)
                      ++-..+.+++.+..++.         ..+.++.+|+|+|||.++-.++..++.+.+.+-. ..+..
T Consensus        68 ~~~Lr~yQ~eav~~~~~---------~~~~ll~~~tG~GKT~~a~~~~~~~~~~~Liv~p~~~L~~  124 (206)
T d2fz4a1          68 EISLRDYQEKALERWLV---------DKRGCIVLPTGSGKTHVAMAAINELSTPTLIVVPTLALAE  124 (206)
T ss_dssp             CCCCCHHHHHHHHHHTT---------TSEEEEEESSSTTHHHHHHHHHHHSCSCEEEEESSHHHHH
T ss_pred             CCCcCHHHHHHHHHHHh---------CCCcEEEeCCCCCceehHHhHHHHhcCceeEEEcccchHH
Confidence            34455666666654431         2335788999999999999999988887766655 34443

>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=96.04  E-value=0.0047  Score=50.64  Aligned_cols=50  Identities=16%  Similarity=0.077  Sum_probs=32.5

Q ss_pred             cHHHHHHHHHHHHhhhhhCCC-CCceEEEeCCCCChHHHHHHHHHHHhCCc
Q psy450          212 LSKLKAEILSTFRGVNRTSGL-KRSGLLLYGPPGTGKTLIAKAVATECRMN  261 (478)
Q Consensus       212 ~~~~k~~l~~~~~~~~~~~~~-~~~~iLl~Gp~GtGKT~la~~la~~~~~~  261 (478)
                      .+....++-+.+......... ++.-++|.|+=|+|||+++|.+++.+|.+
T Consensus        10 ~e~~t~~lg~~la~~l~~~~~~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          10 DEFSMLRFGKKFAEILLKLHTEKAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             SHHHHHHHHHHHHHHHHHHCCSSCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CHHHHHHHHHHHHHHHHhccCCCCeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            344444444444333322122 23458899999999999999999999764

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.01  E-value=0.0072  Score=55.38  Aligned_cols=37  Identities=11%  Similarity=0.086  Sum_probs=29.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC-----CcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR-----MNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~-----~~~~~v~~~~l  270 (478)
                      |--|-+.|++|+||||+|+.+...+.     ..+..++..++
T Consensus        80 P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F  121 (308)
T d1sq5a_          80 PYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             CEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeee
Confidence            66678999999999999999999873     45666666555

>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=96.01  E-value=0.0092  Score=49.81  Aligned_cols=22  Identities=18%  Similarity=0.317  Sum_probs=19.8

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .|.|.|.+|+|||++++++...
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999753

>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=96.00  E-value=0.0035  Score=55.53  Aligned_cols=28  Identities=29%  Similarity=0.491  Sum_probs=23.0

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      |.+ ..-++++||||+|||+++-.++...
T Consensus        32 Glp~G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          32 GIETQAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CccCCEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            455 4568999999999999999887654

>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=95.96  E-value=0.0058  Score=54.04  Aligned_cols=23  Identities=35%  Similarity=0.375  Sum_probs=20.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -+-|.||.|+||||+.++++...
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47799999999999999998754

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase 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: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.91  E-value=0.035  Score=49.42  Aligned_cols=55  Identities=18%  Similarity=0.176  Sum_probs=36.2

Q ss_pred             HHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHH---hCCcEEEEechhh
Q psy450          213 SKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE---CRMNFLAVKGPEL  270 (478)
Q Consensus       213 ~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~---~~~~~~~v~~~~l  270 (478)
                      +++++.+.++.......   .+...||+|..|||||.++-..+..   .|..+..+-+.+.
T Consensus        86 ~~Q~~ai~ei~~d~~~~---~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~Pt~~  143 (264)
T d1gm5a3          86 NAQKRAHQEIRNDMISE---KPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTSI  143 (264)
T ss_dssp             HHHHHHHHHHHHHHHSS---SCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECSCHH
T ss_pred             chHHHHHHHHHHHhhcc---CcceeeeeccccccccHHHHHHHHHHHhcccceeEEeehHh
Confidence            55666666655544321   1556899999999999988766543   3666666665444

>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=95.91  E-value=0.012  Score=54.23  Aligned_cols=125  Identities=12%  Similarity=0.220  Sum_probs=82.0

Q ss_pred             hhhhcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------------------------
Q psy450           39 NLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------------------------   94 (478)
Q Consensus        39 ~a~~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------------------------   94 (478)
                      ..++..-||+||||||... ..+.+.+++-+|.-....  ......+-.+.++++.                        
T Consensus       120 ~~~~~p~~Vvl~DEieK~~-~~v~~~ll~~l~~g~~~~--~~gr~v~~~~~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~  196 (315)
T d1qvra3         120 AVRRRPYSVILFDEIEKAH-PDVFNILLQILDDGRLTD--SHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDE  196 (315)
T ss_dssp             HHHHCSSEEEEESSGGGSC-HHHHHHHHHHHTTTEECC--SSSCCEECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHhCCCcEEEEehHhhcC-HHHHHHHHHHhccCceeC--CCCcEecCcceEEEEecccChHHHhhhcccccchhhhhHH
Confidence            3344445999999999865 456777777777522110  0011123334344443                        


Q ss_pred             --------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhc-------CCCCCCChhHHHHHHHh--cCCCCHHHHHHH
Q psy450           95 --------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCL-------GGDYGFDASLVEYLSSV--TSGFERHDLTCL  157 (478)
Q Consensus        95 --------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~-------~~~~~~~~~~i~~la~~--t~G~s~~di~~l  157 (478)
                              +.|.+..|||..+.|...+.++..+|+...+..+       ...+..+.+.++.|++.  ...+.+..++..
T Consensus       197 ~~~~l~~~f~pEflnRid~Ii~F~~L~~~~~~~I~~~~l~~l~~rl~~~~i~l~i~~~~~~~L~~~~y~~~~GAR~L~r~  276 (315)
T d1qvra3         197 VFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRV  276 (315)
T ss_dssp             HHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHHHHCBTTTBTSTHHHH
T ss_pred             HHHHHHhhcCHHHHhcCCeeeeccchhhhhhHHHHHHHHHHHHHHHHhccccccccHHHHHHHHHhCCCCCCCcchHHHH
Confidence                    6788888999999999999999999988776553       12334455666788775  556777788887


Q ss_pred             HHHHHHHHH
Q psy450          158 VRLSVKNKM  166 (478)
Q Consensus       158 ~~~a~~~a~  166 (478)
                      +++.....+
T Consensus       277 Ie~~i~~~L  285 (315)
T d1qvra3         277 IQRELETPL  285 (315)
T ss_dssp             HHHHTHHHH
T ss_pred             HHHHHHHHH
Confidence            777665544

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.91  E-value=0.017  Score=52.08  Aligned_cols=25  Identities=28%  Similarity=0.357  Sum_probs=21.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ..-+.|.||+|+||||+++.++..+
T Consensus        62 Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhCCC
Confidence            3457899999999999999998765

>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=95.83  E-value=0.0024  Score=53.92  Aligned_cols=25  Identities=20%  Similarity=0.444  Sum_probs=22.1

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      +-++|.||+|+||||+++.+.+...
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            3478999999999999999998874

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=95.83  E-value=0.0065  Score=49.67  Aligned_cols=21  Identities=29%  Similarity=0.548  Sum_probs=19.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .|++.|+||+|||+|.+++..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            389999999999999999974

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=95.83  E-value=0.0091  Score=53.58  Aligned_cols=24  Identities=29%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-.+|+|+||+|||+++-.+|..+
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            347899999999999999887653

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=95.81  E-value=0.023  Score=48.80  Aligned_cols=84  Identities=7%  Similarity=0.060  Sum_probs=59.9

Q ss_pred             cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe-------eCHhHHhccccEEEeCCCCHH
Q psy450           43 YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL-------IRKQIQKLFLKTINVLPLTEP  115 (478)
Q Consensus        43 ~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via-------ld~al~rRf~~~i~~~~P~~~  115 (478)
                      .+.-|++|||+|.+-... .+.++..|+.              ....+.+|.       +.|.+++|. ..+.|+.|+.+
T Consensus       107 ~~~kviIide~d~l~~~a-~n~Llk~lEe--------------p~~~~~fIl~t~~~~~ll~tI~SRc-~~i~~~~~~~~  170 (207)
T d1a5ta2         107 GGAKVVWVTDAALLTDAA-ANALLKTLEE--------------PPAETWFFLATREPERLLATLRSRC-RLHYLAPPPEQ  170 (207)
T ss_dssp             SSCEEEEESCGGGBCHHH-HHHHHHHHTS--------------CCTTEEEEEEESCGGGSCHHHHTTS-EEEECCCCCHH
T ss_pred             CccceEEechhhhhhhhh-hHHHHHHHHh--------------hcccceeeeeecChhhhhhhhccee-EEEecCCCCHH
Confidence            345699999999987653 6778888883              333444443       999999999 88999999999


Q ss_pred             HHHHHHHHHHhhcCCCCCCChhHHHHHHHhcCCC
Q psy450          116 ERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGF  149 (478)
Q Consensus       116 ~r~~il~~~~~~~~~~~~~~~~~i~~la~~t~G~  149 (478)
                      +...+|+...       ..+.+.++.++..++|-
T Consensus       171 ~~~~~L~~~~-------~~~~~~~~~i~~~s~Gs  197 (207)
T d1a5ta2         171 YAVTWLSREV-------TMSQDALLAALRLSAGS  197 (207)
T ss_dssp             HHHHHHHHHC-------CCCHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHcC-------CCCHHHHHHHHHHcCCC
Confidence            8777775322       23444457788776643

>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=95.75  E-value=0.0045  Score=51.23  Aligned_cols=31  Identities=19%  Similarity=0.149  Sum_probs=25.0

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      +-++|++|+||||++..++.++   |..+..+..
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik~   37 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKH   37 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEEe
Confidence            5699999999999999998876   556655543

>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=95.74  E-value=0.0027  Score=54.99  Aligned_cols=25  Identities=12%  Similarity=0.134  Sum_probs=22.2

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCC
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      -|-+.|++|+||||+++.++..++.
T Consensus         4 iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           4 LIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhch
Confidence            3668999999999999999999864

>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=95.72  E-value=0.01  Score=52.27  Aligned_cols=23  Identities=35%  Similarity=0.447  Sum_probs=20.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -+-|.||.|+||||+.++++...
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            35699999999999999998765

>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=95.68  E-value=0.003  Score=53.73  Aligned_cols=31  Identities=19%  Similarity=0.372  Sum_probs=26.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      .+.++|+|||+||||+++.++.+-++..++.
T Consensus        53 kn~i~~~GP~~TGKS~f~~sl~~~l~G~vis   83 (205)
T d1tuea_          53 KNCLVFCGPANTGKSYFGMSFIHFIQGAVIS   83 (205)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHHHHTCEECC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHhCCEEEe
Confidence            5679999999999999999999999765543

>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=95.52  E-value=0.005  Score=51.48  Aligned_cols=30  Identities=27%  Similarity=0.432  Sum_probs=24.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      ..++||.|+||+|||++|-.+... |..++.
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~-g~~lv~   43 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR-GHRLIA   43 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT-TCEEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEEe
Confidence            678999999999999999888765 665544

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.40  E-value=0.0054  Score=51.62  Aligned_cols=26  Identities=27%  Similarity=0.423  Sum_probs=22.3

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      +.++|.||+|+|||++++.+.+....
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~~   29 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHPD   29 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCc
Confidence            45899999999999999999977643

>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=95.40  E-value=0.038  Score=50.95  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=21.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...|-++||||+||||+...++..+
T Consensus        54 ~~~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          54 TLRLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             ceEEEeeCCCCCCHHHHHHHHHHHH
Confidence            4458899999999999999998765

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {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: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=95.33  E-value=0.032  Score=47.12  Aligned_cols=32  Identities=34%  Similarity=0.371  Sum_probs=22.5

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH----hCCcEEEEec
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE----CRMNFLAVKG  267 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~----~~~~~~~v~~  267 (478)
                      +.|+++|+|+|||.++-.++..    .+..++.+.+
T Consensus        25 n~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~P   60 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP   60 (200)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECS
T ss_pred             CeEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEcC
Confidence            4889999999999876655542    3555666554

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.25  E-value=0.0042  Score=53.33  Aligned_cols=28  Identities=36%  Similarity=0.559  Sum_probs=22.9

Q ss_pred             CCC-CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          231 GLK-RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       231 ~~~-~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      |.+ ..-++++||||+|||+++..+|...
T Consensus        19 Gi~~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          19 GIETGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcCCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            444 4568999999999999999998754

>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=95.22  E-value=0.0067  Score=51.39  Aligned_cols=30  Identities=20%  Similarity=0.221  Sum_probs=24.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      |--|-++|++|+||||+|+.+ .+.|.+++.
T Consensus         3 p~IIgitG~~gSGKstva~~l-~~~g~~~~~   32 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALL-RSWGYPVLD   32 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHH-HHTTCCEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHH-HHCCCeEEE
Confidence            334668999999999999998 568877654

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {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: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.21  E-value=0.046  Score=46.66  Aligned_cols=47  Identities=23%  Similarity=0.268  Sum_probs=26.6

Q ss_pred             CcccccCcHHHHHHHHHH-HHhh--hhhC----CCCCceEEEeCCCCChHHHHH
Q psy450          205 SWEDIGGLSKLKAEILST-FRGV--NRTS----GLKRSGLLLYGPPGTGKTLIA  251 (478)
Q Consensus       205 ~~~~i~g~~~~k~~l~~~-~~~~--~~~~----~~~~~~iLl~Gp~GtGKT~la  251 (478)
                      +|+++.-.+...+.|.+. +..|  .+..    -...+.+++.+|+|+|||+.-
T Consensus         2 sF~~l~L~~~l~~~L~~~g~~~pt~iQ~~aip~il~g~dvi~~a~tGsGKTlay   55 (206)
T d1s2ma1           2 TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAF   55 (206)
T ss_dssp             CGGGGCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHHTCCEEEECCTTSCHHHHH
T ss_pred             ChHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEecCCcchhhhhh
Confidence            466666666666666543 0000  0000    001456999999999999643

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.15  E-value=0.0062  Score=53.78  Aligned_cols=29  Identities=21%  Similarity=0.323  Sum_probs=23.7

Q ss_pred             CCCC-CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          230 SGLK-RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       230 ~~~~-~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .|.+ ..-++++||||||||++|..++...
T Consensus        32 GGip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          32 GGIESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             SSBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             CCCcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3555 4568999999999999999998643

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.10  E-value=0.065  Score=49.34  Aligned_cols=141  Identities=15%  Similarity=0.041  Sum_probs=82.1

Q ss_pred             CCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe--------eCHhHHhccccEEEeCCC-CHH
Q psy450           45 LDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL--------IRKQIQKLFLKTINVLPL-TEP  115 (478)
Q Consensus        45 p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via--------ld~al~rRf~~~i~~~~P-~~~  115 (478)
                      ..|+|+||+..+ +.+.++.+++-|+.-...-... .....-....+++|        +.++++.||+..+.++.| +..
T Consensus       128 ~gvl~iDEi~~~-~~~~~~aLl~~me~~~v~i~r~-g~~~~~p~~f~liaa~Np~~~~l~~~llDRf~~~i~v~~~~~~~  205 (333)
T d1g8pa_         128 RGYLYIDECNLL-EDHIVDLLLDVAQSGENVVERD-GLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVE  205 (333)
T ss_dssp             TEEEEETTGGGS-CHHHHHHHHHHHHHSEEEECCT-TCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHH
T ss_pred             ccEeecccHHHH-HHHHHHHHhhhhcCCeEEeccc-CceecCCCCEEEEEecCccccccccchhhhhcceeeccCcchhh
Confidence            469999999976 4457889999888421100000 00111123356666        899999999999999988 466


Q ss_pred             HHHHHHHHHHhhc---------------------------CCCCCCChhHHHH---HHHhcCCCCHHHHHHHHHHHHHHH
Q psy450          116 ERRLLIQYQLDCL---------------------------GGDYGFDASLVEY---LSSVTSGFERHDLTCLVRLSVKNK  165 (478)
Q Consensus       116 ~r~~il~~~~~~~---------------------------~~~~~~~~~~i~~---la~~t~G~s~~di~~l~~~a~~~a  165 (478)
                      .|.++........                           -.......+....   ........|..-...+++-|...|
T Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~S~R~~~~llrvArtiA  285 (333)
T d1g8pa_         206 TRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARALA  285 (333)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhcccChHHHHHHHHHHHHHHHHHHHHHhhcccceecCHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHH
Confidence            6665554322110                           0001111121122   222334456666666666665555


Q ss_pred             HHhhcCCCCCCCHHHHHHHHHHhhh
Q psy450          166 MLKQGINKRDLQKEDFQQIYDDLQS  190 (478)
Q Consensus       166 ~~~~~~~~~~it~~d~~~a~~~~~~  190 (478)
                      ..+   +...++.+|+..++.-.-.
T Consensus       286 ~L~---gr~~V~~~di~~a~~lvL~  307 (333)
T d1g8pa_         286 ALE---GATAVGRDHLKRVATMALS  307 (333)
T ss_dssp             HHT---TCSBCCHHHHHHHHHHHHG
T ss_pred             HHc---CCCCCCHHHHHHHHHHHHH
Confidence            544   6788999999988775543

>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=95.09  E-value=0.049  Score=47.21  Aligned_cols=22  Identities=27%  Similarity=0.356  Sum_probs=19.5

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .++|+||...|||+++|.++-.
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~   58 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALI   58 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhHHH
Confidence            4899999999999999998754

>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=95.02  E-value=0.0065  Score=50.77  Aligned_cols=30  Identities=30%  Similarity=0.445  Sum_probs=24.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLA  264 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~  264 (478)
                      ..++||.|++|+|||++|-.+... |..++.
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~-G~~lva   44 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK-NHLFVG   44 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT-TCEEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCceec
Confidence            568999999999999999888654 555544

>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=94.95  E-value=0.006  Score=51.90  Aligned_cols=31  Identities=23%  Similarity=0.166  Sum_probs=26.2

Q ss_pred             CCceEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          233 KRSGLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       233 ~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      +|.-|.+.|+.|+||||+++.|++.++...+
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l~~~~~   38 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYKNDICL   38 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGTTTEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            3666889999999999999999999876544

>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=94.95  E-value=0.0085  Score=49.69  Aligned_cols=28  Identities=25%  Similarity=0.398  Sum_probs=23.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNF  262 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~  262 (478)
                      ..++||.|++|+|||++|-.+.+. |..+
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~-g~~l   42 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR-GHRL   42 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeE
Confidence            568999999999999999887765 5444

>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=94.94  E-value=0.062  Score=49.34  Aligned_cols=34  Identities=26%  Similarity=0.306  Sum_probs=25.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CC--cEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RM--NFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~--~~~~v~~  267 (478)
                      ..-|-++||||+||||+...++..+   +.  -++.++.
T Consensus        51 ~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDp   89 (323)
T d2qm8a1          51 AIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDP   89 (323)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECG
T ss_pred             ceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeeccc
Confidence            4447899999999999999998764   33  3455554

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=94.94  E-value=0.0068  Score=49.20  Aligned_cols=21  Identities=29%  Similarity=0.379  Sum_probs=19.1

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      |++.|+||+|||++++.+...
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            889999999999999998753

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {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: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=94.84  E-value=0.0064  Score=53.57  Aligned_cols=34  Identities=18%  Similarity=0.190  Sum_probs=23.4

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      ++++++.+|+|+|||.++-..+-..   +..++.+.+
T Consensus        58 g~~~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~P   94 (237)
T d1gkub1          58 KESFAATAPTGVGKTSFGLAMSLFLALKGKRCYVIFP   94 (237)
T ss_dssp             TCCEECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEES
T ss_pred             CCCEEEEecCCChHHHHHHHHHHHHHHhcCeEEEEec
Confidence            4569999999999998765544332   445555554

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=94.82  E-value=0.016  Score=49.66  Aligned_cols=34  Identities=24%  Similarity=0.316  Sum_probs=25.8

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      |-++|++||||||+|+.+. +.|.+++.  +..+...
T Consensus         5 IgITG~igSGKStv~~~l~-~~G~~vid--aD~i~~~   38 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT-DLGVPLVD--ADVVARE   38 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH-TTTCCEEE--HHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEEE--chHHHHH
Confidence            5589999999999999886 67887754  4444433

>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=94.69  E-value=0.011  Score=50.83  Aligned_cols=24  Identities=21%  Similarity=0.368  Sum_probs=21.5

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhC
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      -++|.||+|+|||++.+.+.....
T Consensus         4 livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCC
Confidence            478999999999999999998864

>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=94.52  E-value=0.015  Score=50.81  Aligned_cols=30  Identities=20%  Similarity=0.345  Sum_probs=23.4

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh--CCcEEEEe
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC--RMNFLAVK  266 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~--~~~~~~v~  266 (478)
                      +++.|++|+||||+.+.+.+.+  +.....++
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~~~~~~~ivn   34 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVN   34 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTTTSCEEEEE
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhCCeEEEEe
Confidence            6899999999999999998765  33444443

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=94.44  E-value=0.014  Score=50.28  Aligned_cols=34  Identities=26%  Similarity=0.440  Sum_probs=25.6

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechhhhhh
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNK  273 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~l~~~  273 (478)
                      |-++|++|+||||+++.+. ++|.+++  ++..+...
T Consensus         6 IgitG~igSGKStv~~~l~-~~G~~vi--daD~i~~~   39 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA-DLGINVI--DADIIARQ   39 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH-HTTCEEE--EHHHHHHH
T ss_pred             EEEECCCcCCHHHHHHHHH-HCCCcEE--EchHHHHH
Confidence            5689999999999999885 7787654  45455443

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=94.34  E-value=0.01  Score=52.17  Aligned_cols=22  Identities=32%  Similarity=0.613  Sum_probs=19.7

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +.|.||+|+||||+++.++...
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            5588999999999999999865

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {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: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.33  E-value=0.13  Score=43.70  Aligned_cols=22  Identities=18%  Similarity=0.157  Sum_probs=17.7

Q ss_pred             ceEEEeCCCCChHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      ..+++..|+|+|||...-...-
T Consensus        43 ~d~iv~a~TGsGKT~~~~l~~~   64 (208)
T d1hv8a1          43 YNIVAQARTGSGKTASFAIPLI   64 (208)
T ss_dssp             SEEEEECCSSSSHHHHHHHHHH
T ss_pred             CCeeeechhcccccceeecccc
Confidence            4699999999999997765543

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=94.30  E-value=0.071  Score=47.19  Aligned_cols=42  Identities=17%  Similarity=0.378  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHH
Q psy450          215 LKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       215 ~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .+..+.+.+..... ....+-.|+|.|.||+|||++..+|...
T Consensus        14 ~~~~l~e~~~~l~~-~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          14 TQTKLLELLGNLKQ-EDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHHH-TTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHhh-cCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            34444444444432 2233567999999999999999999753

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=94.27  E-value=0.1  Score=45.30  Aligned_cols=37  Identities=24%  Similarity=0.201  Sum_probs=27.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPEL  270 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l  270 (478)
                      +...||+|.+|+|||.++-..+...   |..++.+-+...
T Consensus        76 ~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt~~  115 (233)
T d2eyqa3          76 AMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTL  115 (233)
T ss_dssp             CCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSSHH
T ss_pred             ccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccHHH
Confidence            5678999999999999887665543   667766665443

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.20  E-value=0.012  Score=47.63  Aligned_cols=21  Identities=29%  Similarity=0.504  Sum_probs=19.3

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      |+|.|+||+|||+|+..+...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999999764

>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=94.17  E-value=0.0097  Score=50.99  Aligned_cols=24  Identities=33%  Similarity=0.479  Sum_probs=20.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+.|.||.|+||||+.++++..+
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhccc
Confidence            347799999999999999998755

>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=94.16  E-value=0.012  Score=47.91  Aligned_cols=22  Identities=32%  Similarity=0.475  Sum_probs=19.7

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .++|.|+||+|||+|.+++...
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999764

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.15  E-value=0.02  Score=49.28  Aligned_cols=30  Identities=13%  Similarity=0.197  Sum_probs=24.7

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh---CCcEEEEe
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC---RMNFLAVK  266 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~  266 (478)
                      |.|.|+.|+||||+++.+++.+   |.+++.+.
T Consensus         6 I~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~~   38 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVEALCAAGHRAELLR   38 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            5666999999999999999877   66666654

>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=94.11  E-value=0.022  Score=48.50  Aligned_cols=31  Identities=13%  Similarity=0.216  Sum_probs=25.7

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      |.|.|+.|+||||+++.+++.+   |.+++.+..
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~~~   36 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLAF   36 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEec
Confidence            6788999999999999999876   667766643

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.10  E-value=0.013  Score=50.09  Aligned_cols=22  Identities=32%  Similarity=0.416  Sum_probs=20.1

Q ss_pred             ceEEEeCCCCChHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      ++|+|.|+||+|||+|.+.+..
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~   22 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLT   22 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHc
Confidence            4699999999999999999976

>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=94.04  E-value=0.082  Score=48.35  Aligned_cols=124  Identities=9%  Similarity=0.082  Sum_probs=78.2

Q ss_pred             hhhhcCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------------------------
Q psy450           39 NLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------------------------   94 (478)
Q Consensus        39 ~a~~~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------------------------   94 (478)
                      ..++...+|+++||+|..- ..+.+.+|+-+|.-...-  ......+-++.++++.                        
T Consensus       116 ~~~~~~~~vvl~DeieKa~-~~V~~~lLqild~G~ltd--~~Gr~vdf~n~iiI~Tsnig~~~i~~~~~~~~~~~~~~~~  192 (315)
T d1r6bx3         116 AVIKHPHAVLLLDEIEKAH-PDVFNILLQVMDNGTLTD--NNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDA  192 (315)
T ss_dssp             HHHHCSSEEEEEETGGGSC-HHHHHHHHHHHHHSEEEE--TTTEEEECTTEEEEEEECSSCC-----------------C
T ss_pred             HHHhCccchhhhccccccc-chHhhhhHHhhccceecC--CCCCccCccceEEEeccchhhHHHHhhhccchhhhhhHhH
Confidence            4455567999999999864 457778888777422100  0001112233333333                        


Q ss_pred             -------eCHhHHhccccEEEeCCCCHHHHHHHHHHHHhhc-------CCCCCCChhHHHHHHHh--cCCCCHHHHHHHH
Q psy450           95 -------IRKQIQKLFLKTINVLPLTEPERRLLIQYQLDCL-------GGDYGFDASLVEYLSSV--TSGFERHDLTCLV  158 (478)
Q Consensus        95 -------ld~al~rRf~~~i~~~~P~~~~r~~il~~~~~~~-------~~~~~~~~~~i~~la~~--t~G~s~~di~~l~  158 (478)
                             +.|.++.|||.++.|...+.++..+|+..++..+       +..+..+.+.++.++..  ..++.+..++.++
T Consensus       193 ~~~l~~~f~pEflnRid~ii~f~~l~~~~~~~I~~~~l~~~~~~l~~~~i~l~~~~~a~~~l~~~~yd~~~GaR~L~r~I  272 (315)
T d1r6bx3         193 MEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVI  272 (315)
T ss_dssp             HHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEECHHHHHHHHHHHCBTTTBTTTHHHHH
T ss_pred             HHHHHHhcCHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhcCcchhhHHHHHHHHHHhCCCCCCChhhHHHHH
Confidence                   5677888999999999999999999988887653       12233445555777653  4566667777776


Q ss_pred             HHHHHHH
Q psy450          159 RLSVKNK  165 (478)
Q Consensus       159 ~~a~~~a  165 (478)
                      +.-....
T Consensus       273 e~~i~~~  279 (315)
T d1r6bx3         273 QDNLKKP  279 (315)
T ss_dssp             HHHHTHH
T ss_pred             HHHHHHH
Confidence            6544443

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=94.02  E-value=0.0095  Score=52.43  Aligned_cols=25  Identities=24%  Similarity=0.305  Sum_probs=21.4

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .-+-|.||+||||||+++.++....
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~Gl~~   56 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNLLER   56 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCcc
Confidence            3478999999999999999987653

>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=94.01  E-value=0.033  Score=49.81  Aligned_cols=28  Identities=43%  Similarity=0.659  Sum_probs=24.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN  261 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~  261 (478)
                      ...++|+||++||||+++.++++.+|.-
T Consensus       104 ~n~~~l~G~~~tGKS~f~~~i~~~lg~~  131 (267)
T d1u0ja_         104 RNTIWLFGPATTGKTNIAEAIAHTVPFY  131 (267)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHSSCE
T ss_pred             cEEEEEEcCCCCCHHHHHHHHHHHhcch
Confidence            5678999999999999999999999653

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=93.77  E-value=0.014  Score=51.18  Aligned_cols=31  Identities=16%  Similarity=0.178  Sum_probs=24.9

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCCcEEEEechh
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPE  269 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~  269 (478)
                      |-|+|+.||||||+|+.+++.+|..  .+++++
T Consensus         4 IgiTG~igSGKsTva~~l~e~~g~~--~i~~aD   34 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNYSAV--KYQLAG   34 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEE--ECCTTH
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCe--EEcccH
Confidence            6799999999999999999887754  444433

>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=93.77  E-value=0.016  Score=47.97  Aligned_cols=21  Identities=19%  Similarity=0.453  Sum_probs=18.9

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      +++.|++|+|||++++.+.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            889999999999999998753

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=93.74  E-value=0.013  Score=51.18  Aligned_cols=25  Identities=28%  Similarity=0.248  Sum_probs=21.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ..-++|+|+||+|||+++..+|...
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4558899999999999999998755

>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=93.64  E-value=0.018  Score=52.32  Aligned_cols=18  Identities=28%  Similarity=0.420  Sum_probs=14.8

Q ss_pred             CceEEEeCCCCChHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIA  251 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la  251 (478)
                      ..++++.|+||||||+++
T Consensus        14 ~~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          14 TGPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SSEEEECCCTTSCHHHHH
T ss_pred             CCCEEEEeeCCccHHHHH
Confidence            345899999999999854

>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=93.58  E-value=0.016  Score=47.41  Aligned_cols=21  Identities=38%  Similarity=0.472  Sum_probs=19.1

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .|++.|++|+|||+|.+.+..
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            489999999999999999865

>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=93.47  E-value=0.027  Score=49.24  Aligned_cols=30  Identities=17%  Similarity=0.154  Sum_probs=25.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEE
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFL  263 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~  263 (478)
                      |+-|.+-|+-|+||||+++.+++.++...+
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~~~~i   31 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYPEWHV   31 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCTTSEE
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhhcCC
Confidence            566899999999999999999999865443

>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=93.47  E-value=0.019  Score=47.59  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=20.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      ..-|+|.|++|+|||+|...+..
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45599999999999999999854

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=93.46  E-value=0.048  Score=49.25  Aligned_cols=16  Identities=31%  Similarity=0.399  Sum_probs=14.3

Q ss_pred             CceEEEeCCCCChHHH
Q psy450          234 RSGLLLYGPPGTGKTL  249 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~  249 (478)
                      .+.+++.+|+|+|||+
T Consensus         9 ~~~~lv~~~TGsGKT~   24 (305)
T d2bmfa2           9 KRLTIMDLHPGAGKTK   24 (305)
T ss_dssp             TCEEEECCCTTSSTTT
T ss_pred             CCcEEEEECCCCCHHH
Confidence            5678999999999996

>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=93.39  E-value=0.021  Score=46.79  Aligned_cols=20  Identities=15%  Similarity=0.355  Sum_probs=18.6

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      +++.|+||+|||+++..+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999998875

>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=93.38  E-value=0.019  Score=51.72  Aligned_cols=35  Identities=11%  Similarity=0.306  Sum_probs=25.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh---CCcEEEEechhh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGPEL  270 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~~l  270 (478)
                      -|-++|++|+||||+++++.+.+   +.+...+...++
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsf   43 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF   43 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCC
Confidence            47899999999999999998876   556666666555

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.22  E-value=0.023  Score=48.29  Aligned_cols=22  Identities=27%  Similarity=0.619  Sum_probs=20.2

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .|+|.|+||+|||+|..++.+.
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            5899999999999999999865

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=93.21  E-value=0.025  Score=48.42  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=20.8

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -|.|.|+.|+||||+++.+++.+
T Consensus         4 fIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           4 YIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47788999999999999999877

>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=93.18  E-value=0.024  Score=46.53  Aligned_cols=21  Identities=24%  Similarity=0.491  Sum_probs=19.2

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      |++.|++|+|||+++..+...
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999999763

>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=93.15  E-value=0.024  Score=46.53  Aligned_cols=21  Identities=19%  Similarity=0.455  Sum_probs=19.0

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      +++.|++|+|||++++.+.+.
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999998763

>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=93.14  E-value=0.043  Score=47.22  Aligned_cols=33  Identities=24%  Similarity=0.156  Sum_probs=27.6

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEEec
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG  267 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~  267 (478)
                      .-|.|.|+-|+||||+++.+++.+......+..
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~L~~~~~~~~~   36 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKKLQPNCKLLKF   36 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHTTTSEEEEES
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhCCEEEEE
Confidence            347788999999999999999999777666553

>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=93.13  E-value=0.024  Score=46.69  Aligned_cols=21  Identities=29%  Similarity=0.406  Sum_probs=19.2

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      +++.|++|+|||+++..+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            899999999999999998763

>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=93.12  E-value=0.018  Score=50.69  Aligned_cols=25  Identities=28%  Similarity=0.365  Sum_probs=21.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ..-+.+.||+|+||||+++.++..+
T Consensus        28 Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          28 NSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3457899999999999999998754

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=93.09  E-value=0.025  Score=46.32  Aligned_cols=22  Identities=32%  Similarity=0.389  Sum_probs=19.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .|+|.|++|+|||+++..+...
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            3889999999999999998653

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.06  E-value=0.025  Score=46.51  Aligned_cols=21  Identities=29%  Similarity=0.582  Sum_probs=19.2

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      +++.|++|+|||++++.+...
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999998863

>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=93.05  E-value=0.021  Score=47.15  Aligned_cols=23  Identities=22%  Similarity=0.329  Sum_probs=20.2

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      ..|++.|.||+|||+++..+...
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45999999999999999998753

>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=92.98  E-value=0.02  Score=50.98  Aligned_cols=24  Identities=17%  Similarity=0.325  Sum_probs=20.7

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .-+-|.||+|+||||++++++...
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCc
Confidence            347899999999999999998644

>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=92.93  E-value=0.024  Score=46.75  Aligned_cols=20  Identities=30%  Similarity=0.617  Sum_probs=18.9

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      +++.|++|+|||++++.+.+
T Consensus         8 i~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999986

>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=92.88  E-value=0.026  Score=48.89  Aligned_cols=28  Identities=18%  Similarity=0.281  Sum_probs=22.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCc
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMN  261 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~  261 (478)
                      .+..+|.|+||+|||+|..++.......
T Consensus        95 ~kt~~~~G~SGVGKSTLiN~L~~~~~~~  122 (225)
T d1u0la2          95 GKISTMAGLSGVGKSSLLNAINPGLKLR  122 (225)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHSTTCCCC
T ss_pred             CCeEEEECCCCCCHHHHHHhhcchhhhh
Confidence            3457899999999999999997555443

>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=92.88  E-value=0.026  Score=47.21  Aligned_cols=20  Identities=35%  Similarity=0.456  Sum_probs=18.5

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |++.|++|+|||++++.+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            88999999999999999874

>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=92.83  E-value=0.028  Score=46.54  Aligned_cols=20  Identities=25%  Similarity=0.496  Sum_probs=18.6

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      +++.|++|+|||++++.+..
T Consensus         7 i~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999865

>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=92.82  E-value=0.029  Score=46.05  Aligned_cols=20  Identities=25%  Similarity=0.331  Sum_probs=18.6

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |+|.|.+|+|||++++.+..
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999875

>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=92.80  E-value=0.026  Score=46.51  Aligned_cols=20  Identities=25%  Similarity=0.451  Sum_probs=18.7

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |+|.|.+|+|||+|++.+..
T Consensus         8 i~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            89999999999999998875

>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=92.77  E-value=0.028  Score=46.32  Aligned_cols=21  Identities=24%  Similarity=0.525  Sum_probs=18.9

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .|.+.|+||+|||++++++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            388999999999999999964

>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=92.68  E-value=0.03  Score=46.04  Aligned_cols=21  Identities=24%  Similarity=0.409  Sum_probs=19.1

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      |++.|.+|+|||+|+..+.+.
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999999853

>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=92.61  E-value=0.032  Score=46.06  Aligned_cols=20  Identities=25%  Similarity=0.536  Sum_probs=18.5

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      +++.|++|+|||++++.+..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            88999999999999999875

>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=92.57  E-value=0.03  Score=51.10  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=16.4

Q ss_pred             ceEEEeCCCCChHHHHH-HHHHH
Q psy450          235 SGLLLYGPPGTGKTLIA-KAVAT  256 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la-~~la~  256 (478)
                      .++++.|+||||||+++ ..++.
T Consensus        25 g~~lV~g~aGSGKTt~l~~ri~~   47 (318)
T d1pjra1          25 GPLLIMAGAGSGKTRVLTHRIAY   47 (318)
T ss_dssp             SCEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCEEEEecCCccHHHHHHHHHHH
Confidence            35899999999999754 33443

>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=92.56  E-value=0.029  Score=45.95  Aligned_cols=21  Identities=24%  Similarity=0.501  Sum_probs=19.2

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      |++.|++|+|||+++..+...
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999998763

>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=92.45  E-value=0.031  Score=45.77  Aligned_cols=21  Identities=29%  Similarity=0.555  Sum_probs=19.0

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      +++.|++|+|||++++.+...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998763

>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=92.44  E-value=0.035  Score=45.29  Aligned_cols=20  Identities=20%  Similarity=0.436  Sum_probs=18.8

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |++.|++|+|||++++.+..
T Consensus         5 v~liG~~~vGKTsLl~~~~~   24 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCA   24 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999976

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.43  E-value=0.034  Score=46.37  Aligned_cols=20  Identities=25%  Similarity=0.546  Sum_probs=18.7

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |++.|.+|||||+++..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999875

>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=92.38  E-value=0.033  Score=45.75  Aligned_cols=20  Identities=20%  Similarity=0.486  Sum_probs=18.3

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |++.|.+|+|||+|++.+..
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999998875

>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=92.30  E-value=0.033  Score=46.00  Aligned_cols=21  Identities=24%  Similarity=0.412  Sum_probs=19.2

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      -|++.|.+|+|||+|++.+..
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            499999999999999998875

>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=92.30  E-value=0.03  Score=46.56  Aligned_cols=21  Identities=14%  Similarity=0.341  Sum_probs=19.2

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .|+|.|+||+|||+|..++.+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999975

>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=92.25  E-value=0.034  Score=45.57  Aligned_cols=21  Identities=14%  Similarity=0.267  Sum_probs=19.1

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      -|++.|++|+|||+|++.+..
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999999875

>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=92.16  E-value=0.031  Score=46.16  Aligned_cols=23  Identities=35%  Similarity=0.510  Sum_probs=19.8

Q ss_pred             CceEEEeCCCCChHHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .--|++.|++|+|||++++.+..
T Consensus        16 ~~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          16 EVRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhc
Confidence            34599999999999999998854

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=92.16  E-value=0.051  Score=51.95  Aligned_cols=34  Identities=26%  Similarity=0.401  Sum_probs=26.9

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      .+|+++.|++|+|||++++.+...+   +.+++.++.
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~   86 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDP   86 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEE
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeC
Confidence            5789999999999999987765443   667777765

>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=92.09  E-value=0.04  Score=45.08  Aligned_cols=20  Identities=30%  Similarity=0.425  Sum_probs=18.7

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |++.|.+|+|||++++.+.+
T Consensus         7 i~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999875

>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=92.09  E-value=0.036  Score=45.18  Aligned_cols=20  Identities=25%  Similarity=0.390  Sum_probs=18.6

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |++.|.+|+|||++++.+.+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999875

>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=92.04  E-value=0.041  Score=45.06  Aligned_cols=21  Identities=24%  Similarity=0.487  Sum_probs=19.1

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      |++.|.+|+|||++++.+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            899999999999999998763

>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=92.01  E-value=0.035  Score=45.61  Aligned_cols=20  Identities=40%  Similarity=0.793  Sum_probs=18.3

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |++.|++|+|||++++.+.+
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            78999999999999998864

>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=91.95  E-value=0.038  Score=45.76  Aligned_cols=21  Identities=24%  Similarity=0.381  Sum_probs=19.0

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      |++.|++|+|||+++..+.+.
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999998764

>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=91.91  E-value=0.043  Score=45.07  Aligned_cols=20  Identities=30%  Similarity=0.504  Sum_probs=18.6

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      +++.|++|+|||++++.+.+
T Consensus         9 i~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999998866

>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=91.91  E-value=0.043  Score=45.22  Aligned_cols=20  Identities=30%  Similarity=0.542  Sum_probs=18.6

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |++.|++|+|||+++..+..
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            89999999999999988876

>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=91.88  E-value=0.039  Score=45.49  Aligned_cols=20  Identities=30%  Similarity=0.554  Sum_probs=18.6

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |++.|.+|+|||++++.+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999875

>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=91.83  E-value=0.044  Score=44.96  Aligned_cols=21  Identities=19%  Similarity=0.412  Sum_probs=19.0

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      -|++.|.+|+|||++++.+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999999875

>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=91.82  E-value=0.044  Score=45.35  Aligned_cols=21  Identities=24%  Similarity=0.472  Sum_probs=19.2

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      -|++.|++|+|||++++.+..
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999999875

>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=91.76  E-value=0.024  Score=49.46  Aligned_cols=26  Identities=15%  Similarity=0.291  Sum_probs=22.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCC
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      +-|.+-|+.|+||||+++.|++.+..
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~~l~~   28 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQLCED   28 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            34889999999999999999998854

>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=91.61  E-value=0.046  Score=45.04  Aligned_cols=20  Identities=35%  Similarity=0.600  Sum_probs=18.4

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |++.|++|+|||+|++.+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999998864

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

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: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=91.57  E-value=0.73  Score=43.27  Aligned_cols=53  Identities=25%  Similarity=0.345  Sum_probs=39.1

Q ss_pred             cCcHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechh
Q psy450          210 GGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPE  269 (478)
Q Consensus       210 ~g~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~  269 (478)
                      |-+..+.++|..-+.   .+    .+..+|.|-+|+|||.++..+++..+.+++.+....
T Consensus        14 gDQP~aI~~l~~~l~---~g----~~~q~l~GltGS~ka~~iA~l~~~~~rp~LVVt~n~   66 (413)
T d1t5la1          14 GDQPQAIAKLVDGLR---RG----VKHQTLLGATGTGKTFTISNVIAQVNKPTLVIAHNK   66 (413)
T ss_dssp             TTHHHHHHHHHHHHH---HT----CSEEEEEECTTSCHHHHHHHHHHHHTCCEEEECSSH
T ss_pred             CCCHHHHHHHHHHHh---cC----CCcEEEeCCCCcHHHHHHHHHHHHhCCCEEEEeCCH
Confidence            445555555554432   21    345889999999999999999999999998887643

>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=91.55  E-value=0.049  Score=44.63  Aligned_cols=20  Identities=30%  Similarity=0.484  Sum_probs=18.4

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      +++.|++|+|||+|++.+..
T Consensus         6 i~vvG~~~vGKTsLi~~~~~   25 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVS   25 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999998865

>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=91.50  E-value=0.052  Score=44.59  Aligned_cols=20  Identities=25%  Similarity=0.441  Sum_probs=18.7

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      +++.|++|+|||++++.+..
T Consensus         7 i~lvG~~~vGKTsll~~~~~   26 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQ   26 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999999876

>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=91.48  E-value=0.05  Score=45.26  Aligned_cols=22  Identities=23%  Similarity=0.289  Sum_probs=19.6

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      -+++.|.+|+|||++++.+...
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999998763

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase 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: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=91.29  E-value=0.15  Score=43.00  Aligned_cols=33  Identities=24%  Similarity=0.169  Sum_probs=23.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhCCcEEEEe
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECRMNFLAVK  266 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~  266 (478)
                      .+++++.-|+|+|||.++...........+.+.
T Consensus        40 g~~vlv~apTGsGKT~~~~~~~~~~~~~~~~v~   72 (206)
T d1oywa2          40 GRDCLVVMPTGGGKSLCYQIPALLLNGLTVVVS   72 (206)
T ss_dssp             TCCEEEECSCHHHHHHHHHHHHHHSSSEEEEEC
T ss_pred             CCCEEEEcCCCCCCcchhhhhhhhccCceEEec
Confidence            346999999999999987655544444444443

>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=91.15  E-value=0.051  Score=45.77  Aligned_cols=20  Identities=35%  Similarity=0.566  Sum_probs=18.6

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |++.|++|+|||+++..+..
T Consensus         9 ivvvG~~~vGKTsli~~l~~   28 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSD   28 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHhh
Confidence            88999999999999999875

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=91.14  E-value=0.13  Score=40.78  Aligned_cols=30  Identities=23%  Similarity=0.408  Sum_probs=22.3

Q ss_pred             EEeCCCCChHHH-HHHHH--HHHhCCcEEEEec
Q psy450          238 LLYGPPGTGKTL-IAKAV--ATECRMNFLAVKG  267 (478)
Q Consensus       238 Ll~Gp~GtGKT~-la~~l--a~~~~~~~~~v~~  267 (478)
                      +++||-.+|||+ |.+.+  ....+.+++.++.
T Consensus         6 ~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ikp   38 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRLHRLEYADVKYLVFKP   38 (139)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EEEccccCHHHHHHHHHHHHHHHCCCcEEEEEE
Confidence            689999999999 66665  3344777777764

>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=91.12  E-value=0.045  Score=46.05  Aligned_cols=21  Identities=19%  Similarity=0.349  Sum_probs=19.2

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .|.|.|+||+||||+.+++.+
T Consensus        25 ~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHhcC
Confidence            489999999999999999974

>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=91.00  E-value=0.054  Score=44.97  Aligned_cols=21  Identities=24%  Similarity=0.458  Sum_probs=19.0

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      ++|.|.+|+|||++++.+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999988763

>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=90.99  E-value=0.035  Score=45.85  Aligned_cols=20  Identities=40%  Similarity=0.569  Sum_probs=8.5

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |++.|.+|+|||++++.+..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999988764

>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=90.88  E-value=0.43  Score=44.17  Aligned_cols=73  Identities=7%  Similarity=0.022  Sum_probs=50.4

Q ss_pred             eCHhHHhccccEEEeCCCCHHHHHHHHHH----H-------HhhcCCCCCCChhHHHHHHHh--cCCCCHHHHHHHHHHH
Q psy450           95 IRKQIQKLFLKTINVLPLTEPERRLLIQY----Q-------LDCLGGDYGFDASLVEYLSSV--TSGFERHDLTCLVRLS  161 (478)
Q Consensus        95 ld~al~rRf~~~i~~~~P~~~~r~~il~~----~-------~~~~~~~~~~~~~~i~~la~~--t~G~s~~di~~l~~~a  161 (478)
                      +-|.++-|||.++.|..-+.+.-.+|+..    +       +...+..+..+.+.++.||+.  ..++.+.-++.++++.
T Consensus       252 f~PEf~gRi~~iv~f~~L~~~~l~~Il~~~~~~l~kq~~~~l~~~gi~L~~td~a~~~la~~g~d~~~GAR~L~riie~~  331 (364)
T d1um8a_         252 LIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDF  331 (364)
T ss_dssp             CCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHH
T ss_pred             hHHHHHHHhcchhhHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhccCCCCCchHHHHHHHHH
Confidence            45677779999999999999999999963    1       222233445566666777764  4567777777777665


Q ss_pred             HHHHHH
Q psy450          162 VKNKML  167 (478)
Q Consensus       162 ~~~a~~  167 (478)
                      +...+.
T Consensus       332 l~~~~f  337 (364)
T d1um8a_         332 CLDIMF  337 (364)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            555443

>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=90.88  E-value=0.11  Score=46.41  Aligned_cols=35  Identities=31%  Similarity=0.294  Sum_probs=29.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEech
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP  268 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~  268 (478)
                      |+-+++.|.=|+||||++-++|..+   |.++..+++.
T Consensus         8 p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~D   45 (296)
T d1ihua1           8 PPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTD   45 (296)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCC
Confidence            7778899999999999999988776   7788777754

>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=90.87  E-value=0.058  Score=45.02  Aligned_cols=22  Identities=23%  Similarity=0.324  Sum_probs=19.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      -+++.|.+|+|||++++.+.+.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3899999999999999998763

>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=90.82  E-value=0.046  Score=47.70  Aligned_cols=23  Identities=35%  Similarity=0.475  Sum_probs=19.9

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .-+-|.||+|+||||+.++++..
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            34778999999999999999863

>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=90.76  E-value=0.049  Score=48.21  Aligned_cols=23  Identities=26%  Similarity=0.479  Sum_probs=20.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -+-|.||.|+||||++++++...
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHCCC
Confidence            47799999999999999998755

>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=90.63  E-value=0.049  Score=44.86  Aligned_cols=23  Identities=26%  Similarity=0.345  Sum_probs=20.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .-.|++.|+||+|||++.+.+..
T Consensus        12 ~~kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          12 EMRILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTTC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34599999999999999999864

>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=90.62  E-value=0.039  Score=45.90  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=19.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVA  255 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la  255 (478)
                      .-.|++.|++|+|||++.+.+.
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTC
T ss_pred             eEEEEEECCCCCCHHHHHHHHh
Confidence            4459999999999999999874

>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=90.59  E-value=0.062  Score=45.06  Aligned_cols=21  Identities=24%  Similarity=0.320  Sum_probs=18.7

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      |++.|++|+|||+++..+...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999888753

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=90.50  E-value=0.11  Score=44.00  Aligned_cols=33  Identities=18%  Similarity=0.192  Sum_probs=26.9

Q ss_pred             ceEEEeCC-CCChHHHHHHHHHHHh---CCcEEEEec
Q psy450          235 SGLLLYGP-PGTGKTLIAKAVATEC---RMNFLAVKG  267 (478)
Q Consensus       235 ~~iLl~Gp-~GtGKT~la~~la~~~---~~~~~~v~~  267 (478)
                      +.++++|- +|+|||+++-.+|..+   |.++..++.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~   38 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKP   38 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECS
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECc
Confidence            45899998 6999999999888766   777877764

>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=90.50  E-value=0.033  Score=45.92  Aligned_cols=20  Identities=50%  Similarity=0.602  Sum_probs=17.6

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      +++.|++|+|||+++..+.+
T Consensus         6 i~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC-
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999998754

>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=90.20  E-value=0.065  Score=44.09  Aligned_cols=21  Identities=19%  Similarity=0.371  Sum_probs=19.1

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      .|.|.|.||+|||+|.+++.+
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            378999999999999999975

>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=89.94  E-value=0.055  Score=44.69  Aligned_cols=22  Identities=14%  Similarity=0.228  Sum_probs=19.6

Q ss_pred             CceEEEeCCCCChHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVA  255 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la  255 (478)
                      ...|.|.|+|++|||+|.+++.
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~   37 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLT   37 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            4569999999999999999884

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=89.78  E-value=0.031  Score=46.91  Aligned_cols=23  Identities=30%  Similarity=0.296  Sum_probs=20.5

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhC
Q psy450          237 LLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .+|+||.|+|||++..||.-.++
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            57899999999999999987764

>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=89.61  E-value=0.064  Score=44.54  Aligned_cols=20  Identities=30%  Similarity=0.483  Sum_probs=18.1

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |-|.|+||+|||+|.+++.+
T Consensus         4 VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSEE
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            78999999999999999853

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.44  E-value=0.034  Score=45.04  Aligned_cols=21  Identities=24%  Similarity=0.585  Sum_probs=19.3

Q ss_pred             EEEeCCCCChHHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~  257 (478)
                      |.|.|.||+|||++++++...
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999764

>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=89.13  E-value=0.072  Score=44.04  Aligned_cols=20  Identities=30%  Similarity=0.454  Sum_probs=18.4

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      |.|.|.||+|||++++++..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            88999999999999999964

>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=88.87  E-value=0.098  Score=43.75  Aligned_cols=18  Identities=33%  Similarity=0.578  Sum_probs=17.4

Q ss_pred             EEEeCCCCChHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAV  254 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~l  254 (478)
                      +++.|.+|+|||++++.+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            899999999999999998

>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=88.78  E-value=0.052  Score=47.11  Aligned_cols=26  Identities=23%  Similarity=0.409  Sum_probs=19.5

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      .+..+|.|+||+|||+|..++.....
T Consensus        97 ~~~~vl~G~SGVGKSSLiN~L~~~~~  122 (231)
T d1t9ha2          97 DKTTVFAGQSGVGKSSLLNAISPELG  122 (231)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC---
T ss_pred             cceEEEECCCCccHHHHHHhhccHhH
Confidence            34467889999999999999965443

>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=88.78  E-value=0.11  Score=43.03  Aligned_cols=22  Identities=23%  Similarity=0.443  Sum_probs=19.6

Q ss_pred             ceEEEeCCCCChHHHHHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      -.|.+.|.+|+|||+|..++..
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHC
Confidence            3588999999999999999975

>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=88.38  E-value=0.14  Score=42.29  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=19.6

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      .+++.|++|+|||+++..+...
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999988763

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=88.10  E-value=0.11  Score=47.83  Aligned_cols=25  Identities=24%  Similarity=0.344  Sum_probs=22.4

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhCC
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      -|.|-|+-|+||||+++.+++.++.
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEEECCccCCHHHHHHHHHHHhcc
Confidence            4889999999999999999998843

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.00  E-value=0.25  Score=46.55  Aligned_cols=23  Identities=17%  Similarity=0.320  Sum_probs=20.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~  256 (478)
                      +-+|.+.|.||+|||++..++..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            56799999999999999999963

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=86.89  E-value=0.35  Score=39.65  Aligned_cols=21  Identities=29%  Similarity=0.495  Sum_probs=19.2

Q ss_pred             eEEEeCCCCChHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~  256 (478)
                      +|-+.|.|++|||||..++.+
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            588999999999999999974

>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=86.84  E-value=0.15  Score=43.71  Aligned_cols=22  Identities=36%  Similarity=0.481  Sum_probs=19.2

Q ss_pred             eEEEeCCCCChHHHHHHHHHHH
Q psy450          236 GLLLYGPPGTGKTLIAKAVATE  257 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~  257 (478)
                      -|+|.|++|+|||++++.+...
T Consensus         8 KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999988543

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.63  E-value=0.17  Score=47.62  Aligned_cols=24  Identities=25%  Similarity=0.450  Sum_probs=20.8

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCC
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      -+|+||.|+|||++..||+-.+|.
T Consensus        28 ~~i~G~NGsGKS~ileAi~~~lg~   51 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAISFVLGV   51 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            479999999999999999876653

>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=86.43  E-value=0.91  Score=40.00  Aligned_cols=25  Identities=24%  Similarity=0.465  Sum_probs=21.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      ...+++.|++|+|||+++..+++..
T Consensus        68 GQr~~If~~~g~GKt~l~~~i~~~~   92 (276)
T d2jdid3          68 GGKIGLFGGAGVGKTVLIMELINNV   92 (276)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEeeCCCCCCHHHHHHHHHHHH
Confidence            3449999999999999999998763

>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=86.34  E-value=0.33  Score=42.88  Aligned_cols=35  Identities=26%  Similarity=0.372  Sum_probs=27.2

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh---CCcEEEEech
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP  268 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~  268 (478)
                      .+-+++.|.=|+||||++-.+|..+   |.+++.+++.
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~D   57 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSD   57 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence            4457788999999999887777655   7778887764

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=85.96  E-value=0.12  Score=46.52  Aligned_cols=24  Identities=29%  Similarity=0.379  Sum_probs=20.6

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHhC
Q psy450          236 GLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      --+|+||.|+|||++..|++-.++
T Consensus        26 lnvlvG~NgsGKS~iL~Ai~~~lg   49 (308)
T d1e69a_          26 VTAIVGPNGSGKSNIIDAIKWVFG   49 (308)
T ss_dssp             EEEEECCTTTCSTHHHHHHHHTSC
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhC
Confidence            358999999999999999977654

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.81  E-value=0.35  Score=41.12  Aligned_cols=50  Identities=16%  Similarity=0.060  Sum_probs=31.4

Q ss_pred             CCCCcccccCcHHHHHHHHHHHH-hh--hhh----CCCCCceEEEeCCCCChHHHHH
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFR-GV--NRT----SGLKRSGLLLYGPPGTGKTLIA  251 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~-~~--~~~----~~~~~~~iLl~Gp~GtGKT~la  251 (478)
                      +-.+|++++-.++..+.|.+.-- .+  .+.    .-...+.+++.+|+|+|||...
T Consensus         8 ~~~sF~~l~l~~~l~~~L~~~g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKT~a~   64 (212)
T d1qdea_           8 VVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTF   64 (212)
T ss_dssp             CCCCGGGGTCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHH
T ss_pred             cccChhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEeecccccchhhhh
Confidence            34679999877777777764210 00  000    0011456999999999999844

>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=85.76  E-value=0.23  Score=44.35  Aligned_cols=25  Identities=28%  Similarity=0.497  Sum_probs=21.7

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +..+++.|++|+|||+++..+++..
T Consensus        43 GQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          43 GQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             TCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            4459999999999999999998754

>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=85.73  E-value=0.2  Score=41.62  Aligned_cols=22  Identities=32%  Similarity=0.416  Sum_probs=19.5

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +++.|..|+|||++++.+...-
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8999999999999999996543

>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=85.50  E-value=0.15  Score=43.81  Aligned_cols=22  Identities=36%  Similarity=0.465  Sum_probs=19.5

Q ss_pred             EEEeCCCCChHHHHHHHHHHHh
Q psy450          237 LLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      .+++|.-|+||||+++.+.+..
T Consensus         6 ~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEeeCCCCCHHHHHHHHHhcC
Confidence            6899999999999999987754

>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=85.04  E-value=0.16  Score=46.58  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=21.9

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCC
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      |.|-|+-|+||||+++.+++.++.
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            788999999999999999998854

>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=84.28  E-value=0.19  Score=45.86  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=18.9

Q ss_pred             EEEeCCCCChHHHHHHHHHHHhCC
Q psy450          237 LLLYGPPGTGKTLIAKAVATECRM  260 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~~~~~  260 (478)
                      |.|-|+-|+||||+++.+++.++.
T Consensus         7 I~IEG~iGsGKTTl~~~La~~l~~   30 (329)
T d1e2ka_           7 VYIDGPHGMGKTTTTQLLVALGSR   30 (329)
T ss_dssp             EEECSCTTSSHHHHHHHHTC----
T ss_pred             EEEECCcCCCHHHHHHHHHHHhCC
Confidence            778899999999999999987754

>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=83.84  E-value=0.82  Score=38.18  Aligned_cols=69  Identities=10%  Similarity=0.036  Sum_probs=46.5

Q ss_pred             hhhhhHHHHhhhh----cCCCeEEEecccccccchhhHhhhccccccccccccchhhhccCCCcEEEEe------eCHhH
Q psy450           30 HHLNDIVKINLKK----YNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHKKKLVL------IRKQI   99 (478)
Q Consensus        30 ~~~~~if~~~a~~----~~p~ilfiDe~d~i~~~r~~~~~l~~~d~~~~~~~~~~~~~~~~~~~v~via------ld~al   99 (478)
                      +++|++.+ .+..    .+.-|++|||+|.+-.. ..|.||..|+.             .+.+.++++.      +.|.+
T Consensus        62 d~IR~i~~-~~~~~~~~~~~KviIId~ad~l~~~-aqNaLLK~LEE-------------Pp~~t~fiLit~~~~~ll~TI  126 (198)
T d2gnoa2          62 DDIRTIKD-FLNYSPELYTRKYVIVHDCERMTQQ-AANAFLKALEE-------------PPEYAVIVLNTRRWHYLLPTI  126 (198)
T ss_dssp             HHHHHHHH-HHTSCCSSSSSEEEEETTGGGBCHH-HHHHTHHHHHS-------------CCTTEEEEEEESCGGGSCHHH
T ss_pred             HHHHHHHH-HHhhCcccCCCEEEEEeCccccchh-hhhHHHHHHhC-------------CCCCceeeeccCChhhCHHHH
Confidence            45677765 4432    22349999999998554 46788888873             1223333333      89999


Q ss_pred             HhccccEEEeCCCCH
Q psy450          100 QKLFLKTINVLPLTE  114 (478)
Q Consensus       100 ~rRf~~~i~~~~P~~  114 (478)
                      ++|. ..+.|+.|+.
T Consensus       127 ~SRC-~~i~~~~p~~  140 (198)
T d2gnoa2         127 KSRV-FRVVVNVPKE  140 (198)
T ss_dssp             HTTS-EEEECCCCHH
T ss_pred             hcce-EEEeCCCchH
Confidence            9998 7788988864

>d1c4oa1 c.37.1.19 (A:2-409) Nucleotide excision repair enzyme UvrB {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: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Thermus thermophilus [TaxId: 274]

Probab=83.77  E-value=6.9  Score=36.16  Aligned_cols=35  Identities=26%  Similarity=0.254  Sum_probs=30.6

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHhCCcEEEEechh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPE  269 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~~~~~~~v~~~~  269 (478)
                      +.+.|.|.+|+||++++.++++..+.+++.|....
T Consensus        29 ~~~~L~GlsgS~ka~~~A~l~~~~~rp~LvVt~~~   63 (408)
T d1c4oa1          29 RFVTLLGATGTGKTVTMAKVIEALGRPALVLAPNK   63 (408)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHHHTCCEEEEESSH
T ss_pred             CcEEEecCCCCHHHHHHHHHHHHhCCCEEEEeCCH
Confidence            34799999999999999999999999998887543

>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=83.26  E-value=0.29  Score=40.31  Aligned_cols=20  Identities=40%  Similarity=0.595  Sum_probs=18.2

Q ss_pred             EEEeCCCCChHHHHHHHHHH
Q psy450          237 LLLYGPPGTGKTLIAKAVAT  256 (478)
Q Consensus       237 iLl~Gp~GtGKT~la~~la~  256 (478)
                      ++|.|..|+|||++++.+..
T Consensus         5 ivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhh
Confidence            89999999999999998854

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.14  E-value=0.42  Score=40.73  Aligned_cols=49  Identities=20%  Similarity=0.137  Sum_probs=31.5

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHh--h--hhhCC----CCCceEEEeCCCCChHHHHH
Q psy450          202 PNVSWEDIGGLSKLKAEILSTFRG--V--NRTSG----LKRSGLLLYGPPGTGKTLIA  251 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~~~--~--~~~~~----~~~~~iLl~Gp~GtGKT~la  251 (478)
                      +-.+|++++-.+...+.|.+. .+  |  .+...    ...+++++..|+|||||...
T Consensus        10 ~i~sF~~l~L~~~l~~~L~~~-g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlay   66 (218)
T d2g9na1          10 IVDSFDDMNLSESLLRGIYAY-GFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATF   66 (218)
T ss_dssp             CCCCGGGSCCCHHHHHHHHHH-TCCSCCHHHHHHHHHHHHTCCEEEECCTTSSHHHHH
T ss_pred             ccCCHHHCCCCHHHHHHHHHC-CCCCCCHHHHHHHHHHHcCCCEEEEcccchhhhhhh
Confidence            445799988777777777543 11  0  00000    01467999999999999854

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {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: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.10  E-value=0.4  Score=40.53  Aligned_cols=18  Identities=28%  Similarity=0.344  Sum_probs=15.2

Q ss_pred             CceEEEeCCCCChHHHHH
Q psy450          234 RSGLLLYGPPGTGKTLIA  251 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la  251 (478)
                      .+.+++..|+|+|||...
T Consensus        38 g~dvl~~A~TGsGKTla~   55 (207)
T d1t6na_          38 GMDVLCQAKSGMGKTAVF   55 (207)
T ss_dssp             TCCEEEECCTTSCHHHHH
T ss_pred             CCCeEEEecccccccccc
Confidence            467999999999999743

>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=83.02  E-value=0.53  Score=41.25  Aligned_cols=33  Identities=18%  Similarity=0.355  Sum_probs=27.3

Q ss_pred             eEEEeCCCCChHHHHHHHHHHHh---CCcEEEEech
Q psy450          236 GLLLYGPPGTGKTLIAKAVATEC---RMNFLAVKGP  268 (478)
Q Consensus       236 ~iLl~Gp~GtGKT~la~~la~~~---~~~~~~v~~~  268 (478)
                      .|-++|.=|+||||++-.+|..+   |.++..+++.
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D   38 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCD   38 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEEC
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecC
Confidence            46789999999999998887766   7788888864

>d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]}

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: Rad54-like, Rad54L
species: Zebra fish (Danio rerio) [TaxId: 7955]

Probab=82.85  E-value=3.1  Score=36.70  Aligned_cols=63  Identities=14%  Similarity=0.126  Sum_probs=35.4

Q ss_pred             cHHHHHHHHHHHHhhhhhCCCCCceEEEeCCCCChHHHHHHHHHHHh----------CCcEEEEechhhhhhh
Q psy450          212 LSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATEC----------RMNFLAVKGPELLNKY  274 (478)
Q Consensus       212 ~~~~k~~l~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~la~~la~~~----------~~~~~~v~~~~l~~~~  274 (478)
                      ...+++-++-+........-....|.+|.=..|+|||..+-++...+          ..+++.+....+...+
T Consensus        57 r~hQ~~gv~~l~~~~~~~~~~~~~g~iLaDemGlGKT~qaia~l~~l~~~~~~~~~~~~~~LIV~P~sl~~qW  129 (298)
T d1z3ix2          57 RPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSPDCKPEIDKVIVVSPSSLVRNW  129 (298)
T ss_dssp             CHHHHHHHHHHHHHHTTSSSTTCCEEEECCCTTSCHHHHHHHHHHHHHHCCTTSSCSCSCEEEEECHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhhhhccCCceEEEeCCCCCHHHHHHHHHHHHHHhcccccCCCCcEEEEccchhhHHH
Confidence            34555555433333222222226679999999999998665543322          1236666666665554

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {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: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=82.74  E-value=0.26  Score=41.60  Aligned_cols=17  Identities=29%  Similarity=0.337  Sum_probs=14.9

Q ss_pred             CceEEEeCCCCChHHHH
Q psy450          234 RSGLLLYGPPGTGKTLI  250 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~l  250 (478)
                      .+++++..|+|||||..
T Consensus        38 G~dvii~a~TGSGKTla   54 (209)
T d1q0ua_          38 GESMVGQSQTGTGKTHA   54 (209)
T ss_dssp             TCCEEEECCSSHHHHHH
T ss_pred             CCCeEeeccccccccee
Confidence            45799999999999974

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {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: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.43  E-value=0.59  Score=39.91  Aligned_cols=49  Identities=18%  Similarity=0.170  Sum_probs=31.7

Q ss_pred             CCCCcccccCcHHHHHHHHHHH-Hhh--hhhC----CCCCceEEEeCCCCChHHHH
Q psy450          202 PNVSWEDIGGLSKLKAEILSTF-RGV--NRTS----GLKRSGLLLYGPPGTGKTLI  250 (478)
Q Consensus       202 ~~~~~~~i~g~~~~k~~l~~~~-~~~--~~~~----~~~~~~iLl~Gp~GtGKT~l  250 (478)
                      ...+|++++-.+...+.|.+.= ..|  .+..    -...++++...|+|||||..
T Consensus        15 ~~~sF~~l~L~~~l~~~L~~~g~~~pt~IQ~~aIp~il~g~dvi~~a~TGSGKTla   70 (222)
T d2j0sa1          15 VTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTAT   70 (222)
T ss_dssp             CCCSGGGGCCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHH
T ss_pred             CCCCHHHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCeEEEcCcchhhhhh
Confidence            3457999988888888776541 111  0000    01156799999999999973

>d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {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: Tandem AAA-ATPase domain
domain: Helicase of the SNF2/Rad54 hamily
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=82.38  E-value=1.6  Score=37.02  Aligned_cols=39  Identities=28%  Similarity=0.259  Sum_probs=27.0

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHh-----CCcEEEEechhhhh
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATEC-----RMNFLAVKGPELLN  272 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~-----~~~~~~v~~~~l~~  272 (478)
                      +.|.+|.=++|+|||..+-+++..+     ..+++.+....+..
T Consensus        31 ~~g~iLaDe~GlGKT~~~i~~~~~~~~~~~~~~~LIv~p~~l~~   74 (230)
T d1z63a1          31 GFGICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPLSVLK   74 (230)
T ss_dssp             TCCEEECCCTTSCHHHHHHHHHHHHHHTTCCSSEEEEECSTTHH
T ss_pred             CCCEEEEeCCCCChHHHHHHhhhhhhhcccccccceecchhhhh
Confidence            4468888899999999888776654     13455555554443

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal 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: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.56  E-value=0.47  Score=36.17  Aligned_cols=24  Identities=8%  Similarity=0.091  Sum_probs=21.1

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      -.|+|+|-+|+||+++|+++...+
T Consensus         7 f~i~~tg~~~~gk~~ia~al~~~l   30 (122)
T d1g8fa3           7 FSIVLGNSLTVSREQLSIALLSTF   30 (122)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHH
Confidence            358999999999999999997665

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=81.16  E-value=0.25  Score=44.57  Aligned_cols=18  Identities=33%  Similarity=0.625  Sum_probs=15.2

Q ss_pred             ceEEEeCCCCChHHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIAK  252 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~  252 (478)
                      ...||+|.+|||||||..
T Consensus        15 ~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          15 DVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             CEEEEEECTTSCHHHHTC
T ss_pred             CEEEEEccCCCCcccccc
Confidence            447999999999999764

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=80.36  E-value=0.32  Score=43.66  Aligned_cols=17  Identities=35%  Similarity=0.659  Sum_probs=14.8

Q ss_pred             ceEEEeCCCCChHHHHH
Q psy450          235 SGLLLYGPPGTGKTLIA  251 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la  251 (478)
                      ..-||.|-+|||||||.
T Consensus        15 ~~alfFGLSGTGKTTLs   31 (313)
T d2olra1          15 DVAVFFGLSGTGKTTLS   31 (313)
T ss_dssp             CEEEEECSTTSSHHHHH
T ss_pred             CEEEEEccCCCCcccce
Confidence            44689999999999976

>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=80.35  E-value=0.51  Score=41.79  Aligned_cols=26  Identities=12%  Similarity=0.027  Sum_probs=22.3

Q ss_pred             CceEEEeCCCCChHHHHHHHHHHHhC
Q psy450          234 RSGLLLYGPPGTGKTLIAKAVATECR  259 (478)
Q Consensus       234 ~~~iLl~Gp~GtGKT~la~~la~~~~  259 (478)
                      -+++-+.|..|+|||+|+.++....|
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~~g   31 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYYTG   31 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcC
Confidence            35799999999999999999976553

>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=80.34  E-value=0.51  Score=41.62  Aligned_cols=24  Identities=29%  Similarity=0.466  Sum_probs=20.7

Q ss_pred             ceEEEeCCCCChHHHHHHHHHHHh
Q psy450          235 SGLLLYGPPGTGKTLIAKAVATEC  258 (478)
Q Consensus       235 ~~iLl~Gp~GtGKT~la~~la~~~  258 (478)
                      +++-+.|..|+|||||+.++....
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~   26 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKT   26 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHc
Confidence            568899999999999999996543