Citrus Sinensis ID: 037859

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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-------480-------490-------500----
Protein Sequence
MVTTGELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKEEAIKKTEEEARKFSRIENRYRKSKFSSTSNPTSKTHNNLHTQTIPTQNLSMESLGCLVL
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHcccEEEEEEEEEccccccccHHHHHHHHHHcccccccccccccccccccccEEEEcccccEEEEEEccEEEEEEEEEccccccccccccccccEEEEEEEEEccccHHHHHHHHHHHHHHHHHHHHHHHHcccEEcccccccccccccccccccccccccHHHHcccHHHHHHHHccccccEEEcccccccHHHHHHHHHHHccccEEEEcccccccHHHHHHHHHccccccEEEEEEEEcccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccEEEEEEccccccccccccccccccEEEEEccccHHHHHHHHHHHccccccHHHHHHHcccccccccHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHcccEEEEEEEccccccccHHHHHHHHHHHHHHcccccccEEEEEcccccccEEEEEccccEEEEEEccEEEEEEEEEEccccccccccccccccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEcccccccccccccccEEEcccccccHHHHcccHHHHHHHHHHHHccEEEEccccccHHHHHHHHHHHccccEEEEEEcEccccHHHHHHHHcccccEEEEEEEcccEEEccccccccccccccccccccccccccccccccccEEEEHHHHHHHccHHccccccEEEEEEcccHHcccHHHccccccccEEEEccccHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccEEEEEccccEEcc
Coil and Loop (DISEMBL)
MVTTGELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMtfhefsgdrlkRSEAFSAIQNYLSTTASLHATrfkadvvkdsQSIVLsmddrqevtdefKGIKVWWVLgknipktqsfsfypatgekrYYRLTFHKshrelitgpyvnhvlaggkaitvknrqrklysnnpsknwygwrstkwshvffehpatfDTLAMETKKKEEIKKDLKkgyllygppgtgkSTMIAAMANFLnydvydlelttvqdNSELRSLLIDTSSKSILVIEDIdcsldltgqrekkkekdedkeeknpiekkekedggskkskVTLSGLLNFIDGlwsasgeerIIVFTTnyvdkldpalirrgrmdkhiemSYCCFEAFKVLAKnyldidshELYAVIEsmpaetnmtpadvaenlmpkcdeddTETCLKNLIEALKAAKEEAIKKTEEEARKFSRIenryrkskfsstsnptskthnnlhtqtiptqnlsmeslgclvl
Flexible Loop (DISEMBL)
mvttgelwATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVlsmddrqevtdeFKGIKVWwvlgknipktqsfsfypaTGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAItvknrqrklysnnpsknwygWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLidtssksilviedidcsldltgqrekkkekdedkeeknpiekkekedggskkskvtLSGLLNFIDGLWSASGEERIIVFttnyvdkldpaLIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKeeaikkteeearkfsrienryrkskfsstsnptskthnnlhtqtiptqnlsmeslgclvl
Low Complexity Region (SEG)
MVTTGELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMetkkkeeikkdlkkgyllygPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQRekkkekdedkeeknpiekkekedggskkskVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIealkaakeeaikkteeearkFSRIENRYRKSKFSSTSNPTSKTHNNLHTQTIPTQNLSMESLGCLVL
Disordered region (IsUnstruct)
****GELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMET*****IKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDL***********************************TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIES**************************TCLKNLIEA*****************************************************************
Disordered Region (DISOPRED)
****GELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLH*******************DDRQEVTDEFKGIKVWWVLGK**************GEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDC***************************************TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIEA**********************************************************SLGCLVL
Disordered Region (DISEMBL)
MVTTGELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTG******************************SKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKEEAIKKTEEEARKFSRIENRYR****************NLHTQTIPTQNLSMESLGCLVL
Disordered Region (DISPRO)
****GELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLT******************************KSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKEEAIKKTEEE*********************************TIPTQNLSMESLGCLVL
Transmembrane Helix (TMHMM)
iiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVTTGELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxENRYRKSKFSSTSNPTSKTHNNLHTQTIPTQNLSMESLGCLVL
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	504	2.2.26 [Sep-21-2011]
Q54DY9	458	Probable mitochondrial ch	no	no	0.351	0.386	0.342	2e-20
Q7ZV60	420	Mitochondrial chaperone B	yes	no	0.378	0.454	0.313	2e-20
Q9CZP5	418	Mitochondrial chaperone B	yes	no	0.321	0.387	0.343	4e-20
Q5E9H5	419	Mitochondrial chaperone B	yes	no	0.329	0.396	0.320	1e-19
Q5UR45	196	Putative AAA family ATPas	N/A	no	0.267	0.688	0.419	1e-19
Q7ZTL7	419	Mitochondrial chaperone B	N/A	no	0.263	0.317	0.363	2e-19
Q9Y276	419	Mitochondrial chaperone B	yes	no	0.321	0.386	0.333	3e-19
Q9P6Q3	449	Probable mitochondrial ch	yes	no	0.297	0.334	0.316	1e-18
Q54HY8	421	Probable mitochondrial ch	no	no	0.261	0.313	0.381	2e-17
P32839	456	Mitochondrial chaperone B	yes	no	0.365	0.403	0.306	2e-16

>sp|Q54DY9|BCS1B_DICDI Probable mitochondrial chaperone BCS1-B OS=Dictyostelium discoideum GN=bcsl1b PE=3 SV=1

 Score =  101 bits (251), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 77/225 (34%), Positives = 105/225 (46%), Gaps = 48/225 (21%)

Query: 190 YGWRSTKWSHVFFEHPA---TFDTLAMETKKKEEIKKDLKK-----------------GY 229
           Y    T W    F HP       ++ ++  K E I +D+KK                 GY
Sbjct: 187 YTSMGTDWRR--FGHPRRKRPISSVILDKGKSELIIQDVKKFLNNSDWYNDRGIPYRRGY 244

Query: 230 LLYGPPGTGKSTMIAAMANFLNYDVYDLELT--TVQDNSELRSLLIDTSSKSILVIEDID 287
           LLYGPPGTGKS+ I A+A  L   +  L L   +V D S L  LL     +SI+++EDID
Sbjct: 245 LLYGPPGTGKSSFITALAGELQLSICILNLAGKSVSDTS-LNQLLATAPQRSIILLEDID 303

Query: 288 CSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGG-------------SKKSKVTLSGLLN 334
            ++  TG  +          + N         GG             S  S +T SGLLN
Sbjct: 304 SAIQ-TGNHDLSA-------KSNSANAPSISSGGLQYQGYYGNPSVSSGGSALTFSGLLN 355

Query: 335 FIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCC 379
            +DG+  A+ E RI+  TTN+++KLD  LIR GR+D  IE+  C 
Sbjct: 356 ALDGV--AASEGRILFMTTNHLEKLDKVLIRPGRVDLQIEIGLCS 398

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.
Dictyostelium discoideum (taxid: 44689)

>sp|Q7ZV60|BCS1_DANRE Mitochondrial chaperone BCS1 OS=Danio rerio GN=bcs1l PE=2 SV=2

 Score =  100 bits (250), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 68/217 (31%), Positives = 115/217 (52%), Gaps = 26/217 (11%)

Query: 226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELT--TVQDNSELRSLLIDTSSKSILVI 283
           ++GYLLYGPPG GKS+ I A+A  L Y +  + L+  ++ D+  L  LL     +SI+++
Sbjct: 223 RRGYLLYGPPGCGKSSFITALAGELGYSICLMSLSDRSLSDD-RLNHLLSVAPQQSIILL 281

Query: 284 EDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS 343
           ED+D +              E    +NP+  +          ++T SGLLN +DG+  AS
Sbjct: 282 EDVDAAF----------VSRELLPTENPLAYQ-------GMGRLTFSGLLNALDGV--AS 322

Query: 344 GEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCC-FEAFKVLAKNYLDIDSHELYAVI 402
            E RI+  TTN++++LDPAL+R GR+D    + +C  ++  ++  + Y    + E     
Sbjct: 323 SEARIVFMTTNFIERLDPALVRPGRVDLKQYVGHCSHWQLTQMFRRFYPQESAAEADHFS 382

Query: 403 E-SMPAETNMTPADVAENLMPKCDEDDTETCLKNLIE 438
           E ++ A T+++ A V  + M    + D    +KN+ E
Sbjct: 383 EQALAAHTDLSAAQVQGHFM--LYKTDPAGAIKNIAE 417

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

Danio rerio (taxid: 7955)

>sp|Q9CZP5|BCS1_MOUSE Mitochondrial chaperone BCS1 OS=Mus musculus GN=Bcs1l PE=1 SV=1

 Score =  100 bits (248), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 68/198 (34%), Positives = 100/198 (50%), Gaps = 36/198 (18%)

Query: 226 KKGYLLYGPPGTGKSTMIAAMANFLNYDV-YDLELTTVQDNSELRSLLIDTSSKSILVIE 284
           ++GYLLYGPPG GKS+ I A+A  L + +       +   +  L  LL     +S++++E
Sbjct: 223 RRGYLLYGPPGCGKSSFITALAGELEHSICLLSLTDSSLSDDRLNHLLSVAPQQSLVLLE 282

Query: 285 DIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG 344
           D+D +               D   +NPI+ +          ++T SGLLN +DG+  AS 
Sbjct: 283 DVDAAF-----------LSRDLAVENPIKYQ-------GLGRLTFSGLLNALDGV--AST 322

Query: 345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCC-------FEAF-----KVLAKNYLD 392
           E RI+  TTNY+D+LDPALIR GR+D    + YC        F+ F       LA+N+ +
Sbjct: 323 EARIVFMTTNYIDRLDPALIRPGRVDLKEYVGYCSHWQLTQMFQRFYPGQAPSLAENFAE 382

Query: 393 IDSHELYAVIESMPAETN 410
              H L A  E  PA+  
Sbjct: 383 ---HVLKATSEISPAQVQ 397

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III. Plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex.

Mus musculus (taxid: 10090)

>sp|Q5E9H5|BCS1_BOVIN Mitochondrial chaperone BCS1 OS=Bos taurus GN=BCS1L PE=2 SV=1

 Score = 98.6 bits (244), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 67/209 (32%), Positives = 102/209 (48%), Gaps = 43/209 (20%)

Query: 226 KKGYLLYGPPGTGKSTMIAAMANFLNYDV-YDLELTTVQDNSELRSLLIDTSSKSILVIE 284
           ++GYLLYGPPG GKS+ I A+A  L + +       +   +  L  LL     +S++++E
Sbjct: 223 RRGYLLYGPPGCGKSSFITALAGELQHSICLLSLTDSSLSDDRLNHLLSVAPQQSLVLLE 282

Query: 285 DIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG 344
           D+D +               D   +NPI+ +          ++T SGLLN +DG+  AS 
Sbjct: 283 DVDAAF-----------LSRDLAAENPIKYQ-------GLGRLTFSGLLNALDGV--AST 322

Query: 345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCC-------FEAF-----KVLAKNYLD 392
           E RI+  TTN++D+LDPALIR GR+D    + +C        F+ F       LA+N+ D
Sbjct: 323 EARIVFMTTNHIDRLDPALIRPGRVDMKEYVGHCSRWQLTQMFQRFYPGQATSLAENFAD 382

Query: 393 IDSHELYAVIESMPAETNMTPADVAENLM 421
                       + A T ++PA V    M
Sbjct: 383 ----------RVLQATTQISPAQVQGYFM 401

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III. Plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex.

Bos taurus (taxid: 9913)

>sp|Q5UR45|YL572_MIMIV Putative AAA family ATPase L572 OS=Acanthamoeba polyphaga mimivirus GN=MIMI_L572 PE=3 SV=1

 Score = 98.2 bits (243), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 60/143 (41%), Positives = 92/143 (64%), Gaps = 8/143 (5%)

Query: 242 MIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSK-SILVIEDIDCSLDLTGQREKKK 300
           MI A++      ++ L L  +QD++EL +LL   + K +ILV+EDIDC+ +    R K++
Sbjct: 1   MIKAISTHTKRHIHYLILNNIQDDNELINLLNAVNCKETILVLEDIDCASEAVKSRAKEE 60

Query: 301 EKDEDK--EEKNPIEKKEKEDG---GSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNY 355
           E   +K  ++K+ +E K   D      K SK+TLSG+LN +DG++++ G  RI++ TTN+
Sbjct: 61  ETVVEKVTDDKSTLENKILADQLKKVEKVSKLTLSGILNSLDGIFNSEG--RIVIMTTNH 118

Query: 356 VDKLDPALIRRGRMDKHIEMSYC 378
            + LDPALIRRGR+D  IE S C
Sbjct: 119 SEVLDPALIRRGRIDMQIEFSNC 141

Acanthamoeba polyphaga (taxid: 5757)

>sp|Q7ZTL7|BCS1_XENLA Mitochondrial chaperone BCS1 OS=Xenopus laevis GN=bcs1l PE=2 SV=1

 Score = 97.8 bits (242), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 56/154 (36%), Positives = 83/154 (53%), Gaps = 21/154 (13%)

Query: 226 KKGYLLYGPPGTGKSTMIAAMANFLNYDV-YDLELTTVQDNSELRSLLIDTSSKSILVIE 284
           ++GYLLYGPPG GKS+ I A+A  L Y +       +   +  L  LL     +SI+++E
Sbjct: 223 RRGYLLYGPPGCGKSSFITALAGELEYSICLMSLSDSSLSDDRLNHLLSVAPQQSIILLE 282

Query: 285 DIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG 344
           D+D +               D  ++NP   +          ++T SGLLN +DG+  AS 
Sbjct: 283 DVDAAF-----------VSRDLNKQNPTAYQ-------GMGRLTFSGLLNALDGV--AST 322

Query: 345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYC 378
           E RI+  TTN++D+LDPALIR GR+D    + +C
Sbjct: 323 EARIVFMTTNHIDRLDPALIRPGRVDVKQYVGHC 356

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

Xenopus laevis (taxid: 8355)

>sp|Q9Y276|BCS1_HUMAN Mitochondrial chaperone BCS1 OS=Homo sapiens GN=BCS1L PE=1 SV=1

 Score = 97.1 bits (240), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 66/198 (33%), Positives = 100/198 (50%), Gaps = 36/198 (18%)

Query: 226 KKGYLLYGPPGTGKSTMIAAMANFLNYDV-YDLELTTVQDNSELRSLLIDTSSKSILVIE 284
           ++GYLLYGPPG GKS+ I A+A  L + +       +   +  L  LL     +S++++E
Sbjct: 223 RRGYLLYGPPGCGKSSFITALAGELEHSICLLSLTDSSLSDDRLNHLLSVAPQQSLVLLE 282

Query: 285 DIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG 344
           D+D +               D   +NP++ +          ++T SGLLN +DG+  AS 
Sbjct: 283 DVDAAF-----------LSRDLAVENPVKYQ-------GLGRLTFSGLLNALDGV--AST 322

Query: 345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCC-------FEAF-----KVLAKNYLD 392
           E RI+  TTN+VD+LDPALIR GR+D    + YC        F+ F       LA+N+ +
Sbjct: 323 EARIVFMTTNHVDRLDPALIRPGRVDLKEYVGYCSHWQLTQMFQRFYPGQAPSLAENFAE 382

Query: 393 IDSHELYAVIESMPAETN 410
              H L A  +  PA+  
Sbjct: 383 ---HVLRATNQISPAQVQ 397

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III. Plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex.

Homo sapiens (taxid: 9606)

>sp|Q9P6Q3|BCS1_SCHPO Probable mitochondrial chaperone bcs1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC644.07 PE=2 SV=1

 Score = 95.1 bits (235), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 63/199 (31%), Positives = 102/199 (51%), Gaps = 49/199 (24%)

Query: 194 STKWSHVFFEHPAT---FDTLAMETKKKEEIKKDL-----------------KKGYLLYG 233
           +T+W    F HP +     ++ +E+  K+ I  D+                 ++GYLLYG
Sbjct: 192 ATEWKP--FGHPRSKRMLSSVVLESNVKKMITDDVHDFLRNSQWYDTRGIPYRRGYLLYG 249

Query: 234 PPGTGKSTMIAAMANFLNYDVYDLELT--TVQDNSELRSLLIDTSSKSILVIEDIDCSLD 291
           PPG+GK++ + A+A  L+YD+  L L    + D+  L  LL +   K+++++ED+D +  
Sbjct: 250 PPGSGKTSFLYALAGELDYDICVLNLAEKGLTDD-RLNHLLSNVPPKAVVLLEDVDSAF- 307

Query: 292 LTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVF 351
                                + +E+       + VT SGLLN +DG+   S +ERII  
Sbjct: 308 ---------------------QGRERSGEVGFHANVTFSGLLNALDGV--TSSDERIIFM 344

Query: 352 TTNYVDKLDPALIRRGRMD 370
           TTN+ +KLDPAL+R GR+D
Sbjct: 345 TTNHPEKLDPALVRPGRVD 363

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q54HY8|BCS1A_DICDI Probable mitochondrial chaperone BCS1-A OS=Dictyostelium discoideum GN=bcs1la PE=3 SV=1

 Score = 90.9 bits (224), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 58/152 (38%), Positives = 88/152 (57%), Gaps = 20/152 (13%)

Query: 226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-DNSELRSLLIDTSSKSILVIE 284
           ++GYLLYG PG GKS++I A+A  LN D+  + L++   D+ ++  LL +   KSIL+IE
Sbjct: 221 RRGYLLYGEPGNGKSSLINAIAGELNLDICIVSLSSKDIDDKQINHLLNNAPPKSILLIE 280

Query: 285 DIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG 344
           DID +                K  ++ ++        +  + +T SGLLN +DG+  AS 
Sbjct: 281 DIDAAF---------------KSHRDNVDSNNNNS--NNNNSLTYSGLLNALDGV--ASQ 321

Query: 345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMS 376
           E RI+  TTN ++ LD ALIR GR+D  I++S
Sbjct: 322 EGRILFMTTNKIELLDSALIREGRIDLKIKVS 353

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

Dictyostelium discoideum (taxid: 44689)

>sp|P32839|BCS1_YEAST Mitochondrial chaperone BCS1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=BCS1 PE=1 SV=2

 Score = 87.8 bits (216), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 69/225 (30%), Positives = 111/225 (49%), Gaps = 41/225 (18%)

Query: 226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-DNSELRSLLIDTSSKSILVIE 284
           ++GYLLYGPPG+GK++ I A+A  L+Y++  L L+     +  L  L+ +   +SIL++E
Sbjct: 260 RRGYLLYGPPGSGKTSFIQALAGELDYNICILNLSENNLTDDRLNHLMNNMPERSILLLE 319

Query: 285 DIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG 344
           DID + +   +R +  E+                      S VT SGLLN +DG+   S 
Sbjct: 320 DIDAAFN---KRSQTGEQ-------------------GFHSSVTFSGLLNALDGV--TSS 355

Query: 345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIES 404
           EE I   TTN+ +KLD A++R GR+D            +KV   N       +++  ++ 
Sbjct: 356 EETITFMTTNHPEKLDAAIMRPGRID------------YKVFVGNATPYQVEKMF--MKF 401

Query: 405 MPAETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKEEAIK 449
            P ET++    V  N + + D   +   L+ L    K A  +A+K
Sbjct: 402 YPGETDICKKFV--NSVKELDITVSTAQLQGLFVMNKDAPHDALK 444

Essential for the expression of the Rieske iron-sulfur protein.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

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	504
359488873	520	PREDICTED: uncharacterized protein LOC10	0.882	0.855	0.681	0.0
255552796	523	ATP binding protein, putative [Ricinus c	0.865	0.833	0.663	0.0
225452601	526	PREDICTED: uncharacterized protein LOC10	0.876	0.840	0.667	1e-179
359488753	528	PREDICTED: ATP-dependent zinc metallopro	0.882	0.842	0.665	1e-179
224104059	494	predicted protein [Populus trichocarpa]	0.896	0.914	0.670	1e-176
224077259	484	predicted protein [Populus trichocarpa]	0.896	0.933	0.670	1e-176
225452605	521	PREDICTED: ATP-dependent zinc metallopro	0.871	0.842	0.652	1e-172
224076142	483	predicted protein [Populus trichocarpa]	0.890	0.929	0.650	1e-171
225452596	509	PREDICTED: uncharacterized protein LOC10	0.886	0.878	0.624	1e-167
356567018	571	PREDICTED: uncharacterized protein LOC10	0.861	0.760	0.631	1e-167

>gi|359488873|ref|XP_002275941.2| PREDICTED: uncharacterized protein LOC100252565 [Vitis vinifera]

 Score =  642 bits (1657), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 317/465 (68%), Positives = 374/465 (80%), Gaps = 20/465 (4%)

Query: 1   MVTTGELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFS 60
           M+  GE+WA  GS++A  MF   +F+QY P+Q + Y+EKYSQKL   +YPYI++TF EFS
Sbjct: 1   MMMMGEMWAKPGSLVAGAMFLWVMFQQYTPHQFRSYIEKYSQKLVSFVYPYIQITFQEFS 60

Query: 61  GDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWW 120
            DR KRSEA+ AI+NYLS  AS  A R KADV+KDSQS+VLSMDDR+EVTDEFKG+K+WW
Sbjct: 61  EDRFKRSEAYVAIENYLSVNASTRAKRLKADVIKDSQSLVLSMDDREEVTDEFKGVKLWW 120

Query: 121 VLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKL 180
              KN PKTQ+FSFYPA  EKR+Y+LTFHK+HRE+  G Y+NHV+  GKAI V+NRQRKL
Sbjct: 121 ASHKNPPKTQTFSFYPAADEKRFYKLTFHKNHREMFVGSYLNHVMKEGKAIEVRNRQRKL 180

Query: 181 YSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDL--------------- 225
           Y+NNPS  W+G+R T WSHV FEHPA F+TLAME KKKEEI  DL               
Sbjct: 181 YTNNPSDKWHGYRRTLWSHVAFEHPARFETLAMEPKKKEEIVNDLTIFSRRKEYYSKIGK 240

Query: 226 --KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVI 283
             K+GYLLYGPPGTGKSTMIAAMAN L+YD+YDLELT+V+ N+ELR LLI+T +KSI+VI
Sbjct: 241 AWKRGYLLYGPPGTGKSTMIAAMANLLDYDIYDLELTSVKSNTELRMLLIETRNKSIIVI 300

Query: 284 EDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS 343
           EDIDCSLDLTGQR+KKKE   ++E+K+PI K EKE G SK+SKVTLSGLLN IDGLWS  
Sbjct: 301 EDIDCSLDLTGQRKKKKET-NEEEKKDPIRKMEKE-GESKESKVTLSGLLNVIDGLWSTC 358

Query: 344 GEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIE 403
           GEER+I+FTTNYV+KLDPALIRRGRMDKHIE+SYCCFEAFKVLAKNYLD+DSH L+A I 
Sbjct: 359 GEERLIIFTTNYVEKLDPALIRRGRMDKHIELSYCCFEAFKVLAKNYLDLDSHHLFASIR 418

Query: 404 SMPAETNMTPADVAENLMPK-CDEDDTETCLKNLIEALKAAKEEA 447
            +  ETNMTPADVAENLMPK    D   TCL++LI+AL+ AKEEA
Sbjct: 419 RLLEETNMTPADVAENLMPKSVTGDPGTTCLESLIQALETAKEEA 463

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255552796|ref|XP_002517441.1| ATP binding protein, putative [Ricinus communis] gi|223543452|gb|EEF44983.1| ATP binding protein, putative [Ricinus communis]

 Score =  641 bits (1654), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 306/461 (66%), Positives = 371/461 (80%), Gaps = 25/461 (5%)

Query: 6   ELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRLK 65
           E+W  LGS +A +MFA A+F+QYFPYQ +GY+++Y++KL   +YPY+++TFHE++G+RLK
Sbjct: 5   EMWTNLGSAIAGIMFAWAMFQQYFPYQFRGYLDRYTRKLVAYVYPYLQITFHEYTGERLK 64

Query: 66  RSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGKN 125
           RSE ++ IQNYLS T+S  A R KADVVKD QS++LSMDD +E+TDE+ GIKVWW   K 
Sbjct: 65  RSELYANIQNYLSATSSTTAKRLKADVVKDGQSLILSMDDHEEITDEYNGIKVWWASSKT 124

Query: 126 IPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNP 185
            PK+Q+ S+YP   E+RY++LT H+ HR++IT  Y++HVL  GK I+++NRQRKLY+NNP
Sbjct: 125 TPKSQTISWYPEAEERRYFKLTVHRRHRDIITTSYIDHVLKEGKTISIRNRQRKLYTNNP 184

Query: 186 SKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDL-----------------KKG 228
           S+NWYGW+++KWSHV FEHPATFDTL M TKKK+EIK DL                 K+G
Sbjct: 185 SQNWYGWKASKWSHVVFEHPATFDTLGMATKKKQEIKNDLIKFSKGKEYYAKIGKAWKRG 244

Query: 229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDC 288
           YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV+DNSELR LLI+T+SKSI+VIEDIDC
Sbjct: 245 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVKDNSELRKLLIETTSKSIIVIEDIDC 304

Query: 289 SLDLTGQR--------EKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW 340
           SLDLTGQR        +     DE K++    +KK+ ED  +K SKVTLSGLLNFIDG+W
Sbjct: 305 SLDLTGQRKPKKEKDDDDDDNDDEKKKDPVSKKKKKDEDESNKGSKVTLSGLLNFIDGIW 364

Query: 341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYA 400
           SA G ERIIVFTTNYV+KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD++SHELY 
Sbjct: 365 SACGGERIIVFTTNYVEKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDVESHELYG 424

Query: 401 VIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIEALK 441
            I  +  ETNMTPADVAENLMPK DE+D +TCLKNLI AL+
Sbjct: 425 KISKLLEETNMTPADVAENLMPKSDEEDEDTCLKNLIAALE 465

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452601|ref|XP_002281222.1| PREDICTED: uncharacterized protein LOC100257701 [Vitis vinifera]

 Score =  635 bits (1638), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 311/466 (66%), Positives = 380/466 (81%), Gaps = 24/466 (5%)

Query: 5   GELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGD-- 62
           GE++  LGSV A  +F  A+F+QYFPYQL+ Y+EKYSQKL   +YPYI++TF EF+ +  
Sbjct: 2   GEMFGQLGSVAAGAIFLWAMFQQYFPYQLRPYIEKYSQKLVSFVYPYIQITFQEFTENSF 61

Query: 63  RLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVL 122
           R KRSEA++AI+NYLS  +S  A R KAD++KDSQS+VLSMDD +EVTDEF+G+K+WWV 
Sbjct: 62  RRKRSEAYAAIENYLSANSSARAKRLKADIIKDSQSVVLSMDDHEEVTDEFQGVKLWWVS 121

Query: 123 GKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYS 182
            K+ PK Q+ SFYPA  EKRYYRLTFH+ +R+LI G Y+NHV+  GKAI V+NRQRKL +
Sbjct: 122 NKSPPKMQAISFYPAADEKRYYRLTFHQQYRDLIVGSYLNHVIKEGKAIAVRNRQRKLCT 181

Query: 183 NNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDL----------------- 225
           NNPS NW+G++ + WSHV FEHPATF+TLAME+KKKEEI  DL                 
Sbjct: 182 NNPSDNWHGYKKSVWSHVAFEHPATFETLAMESKKKEEIVNDLTIFRTRKDYYSKIGKAW 241

Query: 226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIED 285
           K+GYLL+GPPGTGKS+MIAAMAN LNYD+YDLELT+V+DN+ELR LLI+T+SKSI+VIED
Sbjct: 242 KRGYLLHGPPGTGKSSMIAAMANLLNYDIYDLELTSVKDNTELRKLLIETTSKSIIVIED 301

Query: 286 IDCSLDLTGQR--EKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS 343
           IDCSLDLTGQR  +K+KE+++++ + NPI KK KE G SK+SKVTLSGLLNFIDGLWSA 
Sbjct: 302 IDCSLDLTGQRKKKKEKEEEDEESKDNPIPKKGKE-GESKESKVTLSGLLNFIDGLWSAC 360

Query: 344 GEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIE 403
           GEER+IVFTTN+V+KLDPALIRRGRMD+HIE+SYCCFEAFKVLAKNYLD+DSH L+A I 
Sbjct: 361 GEERLIVFTTNHVEKLDPALIRRGRMDRHIELSYCCFEAFKVLAKNYLDLDSHHLFASIR 420

Query: 404 SMPAETNMTPADVAENLMPK--CDEDDTETCLKNLIEALKAAKEEA 447
            +  ETNMTPADVAENLMPK    +D    CL+NLI+AL+ AKEEA
Sbjct: 421 RLLEETNMTPADVAENLMPKSISTDDPGTACLENLIQALETAKEEA 466

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488753|ref|XP_002275823.2| PREDICTED: ATP-dependent zinc metalloprotease FtsH-like [Vitis vinifera]

 Score =  634 bits (1634), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 312/469 (66%), Positives = 377/469 (80%), Gaps = 24/469 (5%)

Query: 2   VTTGELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSG 61
           +   E++A LGS+ A  MF  A+F+QYFPYQL+ Y+EKYS  L   +YPYI++T  EF+ 
Sbjct: 1   MVMAEMFAELGSLAAGAMFLWAMFRQYFPYQLRPYIEKYSHNLVSFVYPYIQITVQEFTE 60

Query: 62  D--RLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVW 119
           +  R KRSEA++AI+NYLS  +S  A R KAD+VKDSQS+VLSMDD +EVTDEFKG+K+W
Sbjct: 61  NSFRRKRSEAYAAIENYLSANSSTRAKRLKADIVKDSQSVVLSMDDHEEVTDEFKGVKLW 120

Query: 120 WVLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRK 179
           W   KN P  Q+ SFYPA   KRYY+LTFHK +R+LI G Y+NHV+  GKAI V+NRQRK
Sbjct: 121 WASNKNPPPMQTISFYPAADGKRYYKLTFHKQYRDLIVGSYLNHVIKEGKAIAVRNRQRK 180

Query: 180 LYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDL-------------- 225
           LY+NNPS+NWYG++ + WSHV FEHPATF+TLAME+KKKEEI  DL              
Sbjct: 181 LYTNNPSQNWYGYKKSVWSHVTFEHPATFETLAMESKKKEEIVNDLTIFRTRKEYYSKIG 240

Query: 226 ---KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILV 282
              K+GYLL+GPPGTGKS+MIAAMAN LNYD+YDLELT+V+DN+ELR LLI+T+SKSILV
Sbjct: 241 KAWKRGYLLHGPPGTGKSSMIAAMANLLNYDIYDLELTSVKDNTELRKLLIETTSKSILV 300

Query: 283 IEDIDCSLDLTGQR--EKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW 340
           IEDIDCSLDLTGQR  +K+KE+++++ + NPI KK KE G SK+SKVTLSGLLNFIDGLW
Sbjct: 301 IEDIDCSLDLTGQRKKKKEKEEEDEESKDNPILKKGKE-GESKESKVTLSGLLNFIDGLW 359

Query: 341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYA 400
           SA GEER+IVFTTN+V+KLDPALIRRGRMDKHIE+SYCCFEAFKVLAKNYLD+DSH L+A
Sbjct: 360 SACGEERLIVFTTNHVEKLDPALIRRGRMDKHIELSYCCFEAFKVLAKNYLDLDSHHLFA 419

Query: 401 VIESMPAETNMTPADVAENLMPK--CDEDDTETCLKNLIEALKAAKEEA 447
            I  +  ETNMTPADVAENLMPK    +D    CL+NLI+AL+ AKEEA
Sbjct: 420 SIRRLLEETNMTPADVAENLMPKSISTDDPGTACLENLIQALETAKEEA 468

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224104059|ref|XP_002333987.1| predicted protein [Populus trichocarpa] gi|222839463|gb|EEE77800.1| predicted protein [Populus trichocarpa]

 Score =  624 bits (1609), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 318/474 (67%), Positives = 381/474 (80%), Gaps = 22/474 (4%)

Query: 4   TGELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDR 63
           TGE+W  L S +  ++ A  +F+QYFP+QL+GY+ KYSQKL    YPYI++TFHEF+ +R
Sbjct: 2   TGEIWTQLSSAITGLVLAWVMFEQYFPHQLRGYLHKYSQKLMSYAYPYIQVTFHEFTSER 61

Query: 64  LKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLG 123
           LKRSEAFSAIQ+YL + ++ +A R KADVV++++ +VL+MDD +EVTD F G+KVWW   
Sbjct: 62  LKRSEAFSAIQSYLGSNSTKNAKRLKADVVRNNEPLVLTMDDYEEVTDVFDGVKVWWSSS 121

Query: 124 KNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSN 183
           K +PKTQS SFYPA  E+R+YRLTFHK +R++IT  Y+ HV   GKAI VKNRQRKL++N
Sbjct: 122 KTVPKTQSISFYPAADERRHYRLTFHKRNRDVITKKYIEHVRKEGKAIAVKNRQRKLFTN 181

Query: 184 NPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDL-----------------K 226
           NPSKN Y W+STKWSHV FEHPATFDTLAMETKKKEEIKKDL                 K
Sbjct: 182 NPSKNSYAWKSTKWSHVVFEHPATFDTLAMETKKKEEIKKDLTKFSKGKDYYAKIGKAWK 241

Query: 227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDI 286
           +GYLLYGPPGTGKSTMI+AMAN L YD+YDLELTTV+DNSELR LLI+T+ KSI+VIEDI
Sbjct: 242 RGYLLYGPPGTGKSTMISAMANLLGYDIYDLELTTVKDNSELRKLLIETTGKSIIVIEDI 301

Query: 287 DCSLDLTGQR---EKKKEKDEDKEEKNPIEKKEKEDGGSKK--SKVTLSGLLNFIDGLWS 341
           DCSLDLTGQR   ++K + D+  +EK+P+ KK+KE    +K  SKVTLSGLLNFIDGLWS
Sbjct: 302 DCSLDLTGQRKKTKEKDDDDQSDKEKDPVSKKKKEAEEERKSGSKVTLSGLLNFIDGLWS 361

Query: 342 ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAV 401
           A G ERIIVFTTNYVDKLDPALIRRGRMDKHIE+SYCCFEAFKVLAKNYL+++SHE++  
Sbjct: 362 ACGGERIIVFTTNYVDKLDPALIRRGRMDKHIELSYCCFEAFKVLAKNYLELESHEMFGK 421

Query: 402 IESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKEEAIKKTEEEA 455
           I+ +  ET MTPADVAENLMP  DE+D E CLK LIE L+ AKEEA KKT+EEA
Sbjct: 422 IDELLGETKMTPADVAENLMPMSDEEDEEDCLKRLIEGLETAKEEARKKTKEEA 475

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224077259|ref|XP_002305194.1| predicted protein [Populus trichocarpa] gi|222848158|gb|EEE85705.1| predicted protein [Populus trichocarpa]

 Score =  623 bits (1606), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 318/474 (67%), Positives = 381/474 (80%), Gaps = 22/474 (4%)

Query: 4   TGELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDR 63
           TGE+W  L S +  ++ A  +F+QYFP+QL+GY+ KYSQKL   +YPYI++TFHEF+ +R
Sbjct: 2   TGEIWTQLSSAITGLVLAWVMFEQYFPHQLRGYLHKYSQKLMSYVYPYIQITFHEFTSER 61

Query: 64  LKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLG 123
           LKRSEAFSAIQ+YL + ++  A R KADVV++++ +VL+MDD +EVTD F G+KVWW   
Sbjct: 62  LKRSEAFSAIQSYLGSNSTKTAKRLKADVVRNNEPLVLTMDDYEEVTDVFDGVKVWWSSS 121

Query: 124 KNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSN 183
           K +PKTQS SFYPA  E+R+YRLTFHK +R++IT  Y+ HV   GKAI VKNRQRKL++N
Sbjct: 122 KTVPKTQSISFYPAADERRHYRLTFHKRNRDVITKKYIEHVRKEGKAIAVKNRQRKLFTN 181

Query: 184 NPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDL-----------------K 226
           N S+N Y W+STKWSHV FEHPATFDTLAMETKKKEEIKKDL                 K
Sbjct: 182 NSSENSYAWKSTKWSHVVFEHPATFDTLAMETKKKEEIKKDLTKFSKGKDYYAKIGKAWK 241

Query: 227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDI 286
           +GYLLYGPPGTGKSTMI+AMAN L+YD+YDLELTTV+DNSELR LLI+T+ KSI+VIEDI
Sbjct: 242 RGYLLYGPPGTGKSTMISAMANLLDYDIYDLELTTVKDNSELRKLLIETTGKSIIVIEDI 301

Query: 287 DCSLDLTGQR---EKKKEKDEDKEEKNPIEKKEKEDGGSKK--SKVTLSGLLNFIDGLWS 341
           DCSLDLTGQR   ++K + D+  +EK+P+ KK+KE    +K  SKVTLSGLLNFIDGLWS
Sbjct: 302 DCSLDLTGQRKKTKEKDDDDQSDKEKDPVSKKKKEAEEERKSGSKVTLSGLLNFIDGLWS 361

Query: 342 ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAV 401
           A G ERIIVFTTNYVDKLDPALIRRGRMDKHIE+SYCCFEAFKVLAKNYL+++SHE++  
Sbjct: 362 ACGGERIIVFTTNYVDKLDPALIRRGRMDKHIELSYCCFEAFKVLAKNYLELESHEMFGK 421

Query: 402 IESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKEEAIKKTEEEA 455
           IE +  ET MTPADVAENLMP  DE+D E CLK LIE L+ AKEEA KKTEEEA
Sbjct: 422 IEELLGETKMTPADVAENLMPMSDEEDEEDCLKRLIEGLETAKEEARKKTEEEA 475

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452605|ref|XP_002275965.1| PREDICTED: ATP-dependent zinc metalloprotease FtsH-like [Vitis vinifera]

 Score =  612 bits (1579), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 301/461 (65%), Positives = 361/461 (78%), Gaps = 22/461 (4%)

Query: 5   GELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRL 64
           GE+WA  GS++A  MF   +F+Q  P+Q + Y+EKYSQKL   +YPYI++TF E+S +R 
Sbjct: 6   GEMWAKPGSLVAGAMFLWVMFQQCMPHQFRSYIEKYSQKLVSFVYPYIQITFQEYSENRY 65

Query: 65  KRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGK 124
           +RSEA+ AI+NYLS  AS  A R KADV+KDSQS+VLSMD+R+EV +EFKG+K+WW   K
Sbjct: 66  RRSEAYVAIENYLSVDASTRAKRLKADVIKDSQSLVLSMDEREEVREEFKGVKLWWASDK 125

Query: 125 NIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNN 184
             PK Q+FSF PA  EKRYY+LTFHK+HRE+I G Y+NHV+  GKAI V+NRQRKL++NN
Sbjct: 126 TPPKMQTFSFAPAADEKRYYKLTFHKNHREMIVGSYLNHVMKEGKAIEVRNRQRKLFTNN 185

Query: 185 PSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDL-----------------KK 227
               WYG++   WSHV FEHPA F+TLAME KKKEEI  DL                 K+
Sbjct: 186 SRDTWYGYKKAVWSHVAFEHPARFETLAMEPKKKEEIINDLTIFSRRKEYYSKIGKAWKR 245

Query: 228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDID 287
           GYLLYGPPGTGKSTMIAAMAN L+YD+YDLELT+V+DN+ELR LLIDT SKSI+VIEDID
Sbjct: 246 GYLLYGPPGTGKSTMIAAMANLLDYDLYDLELTSVKDNTELRKLLIDTRSKSIIVIEDID 305

Query: 288 CSLDLTGQR-EKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEE 346
           CSLDLTGQR +KK+++++++ + N I KK KED    +SKVTLSGLLN IDGLWS  GEE
Sbjct: 306 CSLDLTGQRKKKKEKEEDEESKDNSITKKGKED----ESKVTLSGLLNVIDGLWSTCGEE 361

Query: 347 RIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMP 406
           R+IVFTTNYV+KLDPALIRRGRMDKHIE+SYCCF+AFKVLAKNYLD+DSH L+A I  + 
Sbjct: 362 RLIVFTTNYVEKLDPALIRRGRMDKHIELSYCCFDAFKVLAKNYLDLDSHHLFASIRRLM 421

Query: 407 AETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKEEA 447
            ETNMTPADVAE LMPK   DD  TCL+NLI AL  AK EA
Sbjct: 422 EETNMTPADVAEYLMPKTITDDPGTCLENLILALGTAKGEA 462

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224076142|ref|XP_002304895.1| predicted protein [Populus trichocarpa] gi|222847859|gb|EEE85406.1| predicted protein [Populus trichocarpa]

 Score =  607 bits (1564), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 305/469 (65%), Positives = 370/469 (78%), Gaps = 20/469 (4%)

Query: 6   ELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRLK 65
           EL AT+ S +A V F    +  YFPY ++GY E+  +K+   + PY+ ++FHEF+ +RLK
Sbjct: 4   ELSATISS-LAVVFFMFEKYLNYFPYTIRGYAERNFRKVVNFVNPYVAISFHEFTSERLK 62

Query: 66  RSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGKN 125
           RS+AF AIQNYL T+++ +A R KADVVKDSQS+VLSMD  +EVTD F G++VWW  GK 
Sbjct: 63  RSDAFFAIQNYLGTSSTENARRLKADVVKDSQSVVLSMDAYEEVTDVFNGVRVWWASGKI 122

Query: 126 IPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNP 185
            P+++S S +P + EKRYY+LTFHK +RE+IT  YV HVL  GK I VKNRQR LY+NNP
Sbjct: 123 PPQSKSISLFPGSEEKRYYKLTFHKHYREIITKSYVEHVLKKGKEIAVKNRQRMLYTNNP 182

Query: 186 SKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDL-----------------KKG 228
           SK+W+GW+ TKW ++ FEHP+TFDTLAM+T KKEEIKKDL                 K+G
Sbjct: 183 SKDWHGWKPTKWGNIVFEHPSTFDTLAMDTAKKEEIKKDLIKFSKGKDYYAKIGKAWKRG 242

Query: 229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDC 288
           YLLYGPPGTGKS+MIAAMAN L+YDVYDLELTT++DNSELR LLI+T  KSI+VIEDIDC
Sbjct: 243 YLLYGPPGTGKSSMIAAMANLLDYDVYDLELTTIKDNSELRKLLIETKGKSIIVIEDIDC 302

Query: 289 SLDLTGQREKK--KEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEE 346
           SLDLTGQR+K+  K+ DE  +EK+PI KK+KE      SKVTLSGLLN IDG+WSA G E
Sbjct: 303 SLDLTGQRKKRKEKDDDEADKEKDPISKKKKEAEEESGSKVTLSGLLNVIDGIWSACGGE 362

Query: 347 RIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMP 406
           RII+FTTNYVDKLDPALIRRGRMDKHI MSYCCFEAFKVLAKNYLDI+SHEL+  IE + 
Sbjct: 363 RIIIFTTNYVDKLDPALIRRGRMDKHIVMSYCCFEAFKVLAKNYLDIESHELFGKIEELF 422

Query: 407 AETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKEEAIKKTEEEA 455
            E+ M+PADVA++LMPK DE D ETCLK L+EAL+A+KEEA KK+EEEA
Sbjct: 423 VESKMSPADVADSLMPKSDEQDEETCLKRLVEALEASKEEARKKSEEEA 471

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452596|ref|XP_002275800.1| PREDICTED: uncharacterized protein LOC100255946 [Vitis vinifera]

 Score =  595 bits (1533), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 291/466 (62%), Positives = 366/466 (78%), Gaps = 19/466 (4%)

Query: 6   ELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRLK 65
           ELWA LGS +AS+MF  A+F +YFP  LQ  + +   +L  + YPYI++ FHEFS D  +
Sbjct: 7   ELWAQLGSSIASLMFLWAMFHRYFPRHLQASIARLYDRLSSLFYPYIQIRFHEFSRDSFR 66

Query: 66  RSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGKN 125
           R+EA+SAI++YL + ++  A R K +V ++S+S+VL+MDD +EV+DEF+GIK+ W L K 
Sbjct: 67  RNEAYSAIESYLGSKSTKQAKRLKGNVQRNSKSVVLTMDDHEEVSDEFQGIKLVWSLIKL 126

Query: 126 IPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNP 185
           +P TQSFSFYPAT EKRYY+LTFH  +RE+ITG Y+ +V+  G+AI  KNRQRKLY+NNP
Sbjct: 127 VPTTQSFSFYPATSEKRYYKLTFHMKYREIITGSYLKYVVEEGQAIAFKNRQRKLYTNNP 186

Query: 186 SKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDL-----------------KKG 228
           S N Y  R T WSHV FEHP +F+T+A++ KKKEEI  DL                 K+G
Sbjct: 187 SHNSYSSR-TLWSHVVFEHPGSFETMAIDQKKKEEIMDDLTTFSKAKEYYARIGKAWKRG 245

Query: 229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDC 288
           YLLYGPPGTGKSTMIAA+ANFL YDVYDLELT V+ N+ELR LLI+TSSKSI+VIEDIDC
Sbjct: 246 YLLYGPPGTGKSTMIAAIANFLKYDVYDLELTAVKSNTELRKLLIETSSKSIIVIEDIDC 305

Query: 289 SLDLTGQREKKKEKDEDKEEKNPI-EKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEER 347
           SL LTGQR+KK +KD +KEE +PI +K+E+EDG  + SKVTLSGLLNFIDG+WS+SG ER
Sbjct: 306 SLGLTGQRKKKNQKDGNKEETDPIKKKEEEEDGERQNSKVTLSGLLNFIDGIWSSSGGER 365

Query: 348 IIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPA 407
           +I+FTTNYV KLDPALIRRGRMDKHIE+SYC FEAFKVLAKNYL+I+SH  +  I S+  
Sbjct: 366 LIIFTTNYVKKLDPALIRRGRMDKHIELSYCSFEAFKVLAKNYLNIESHPFFETIGSLLE 425

Query: 408 ETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKEEAIKKTEE 453
           E +MTPADVAENLMPK  + D+ETCL++LI+AL+AAK+++I   EE
Sbjct: 426 EISMTPADVAENLMPKTIKGDSETCLESLIQALEAAKKDSINAKEE 471

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356567018|ref|XP_003551720.1| PREDICTED: uncharacterized protein LOC100777731 [Glycine max]

 Score =  594 bits (1532), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 288/456 (63%), Positives = 361/456 (79%), Gaps = 22/456 (4%)

Query: 5   GELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRL 64
           GELW  +GS+MA++MF  A+ +++FP  L+  ++ ++QK+  +LYPY+++TF EFSG+RL
Sbjct: 2   GELWTQMGSLMATIMFVYAMVERFFPAALRDTLQIHTQKVVNLLYPYVQITFPEFSGERL 61

Query: 65  KRSEAFSAIQNYLSTTASLHATRFKADVVKDSQS-IVLSMDDRQEVTDEFKGIKVWWVLG 123
           KRSEA++AIQ YLS  +S  A R KA+VVKDSQ+ +VLSMDD +EVTDEF+G+K+WW   
Sbjct: 62  KRSEAYTAIQTYLSENSSQLAKRLKAEVVKDSQNPLVLSMDDDEEVTDEFQGVKLWWAAS 121

Query: 124 KNI--PKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLY 181
           K    P   SFS+Y     KRY++LTFHK HR+LIT  Y+ HVL  GK I ++NRQRKLY
Sbjct: 122 KTASNPHAYSFSYYSPPDGKRYFKLTFHKKHRDLITISYIKHVLEEGKEIALRNRQRKLY 181

Query: 182 SNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDL---------------- 225
           +NNPS  WYG++ +KWSH+ FEHPATF+TLAM+ +KKEEI  DL                
Sbjct: 182 TNNPSSGWYGYKQSKWSHIVFEHPATFETLAMDHRKKEEIINDLVKFRNGKDYYAKIGKA 241

Query: 226 -KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIE 284
            K+GYLLYGPPGTGKSTMIAAMANF+NYDVYDLELT V+DN+ELR LLI+TSSK+I+V+E
Sbjct: 242 WKRGYLLYGPPGTGKSTMIAAMANFMNYDVYDLELTAVKDNTELRKLLIETSSKAIIVVE 301

Query: 285 DIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG 344
           DIDCSLDLTGQR  ++E+ E++E K+P +K E+E  G+K SKVTLSGLLNFIDG+WSA G
Sbjct: 302 DIDCSLDLTGQRNMRRERGEEEEPKDPSKKDEEE--GNKNSKVTLSGLLNFIDGIWSACG 359

Query: 345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIES 404
            ERII+FTTN+VDKLDPALIR GRMDKHIE+SYC FEAFKVLAKNYLD+DSH L+A I +
Sbjct: 360 GERIIIFTTNFVDKLDPALIRTGRMDKHIELSYCRFEAFKVLAKNYLDVDSHNLFARIAN 419

Query: 405 MPAETNMTPADVAENLMPKCDEDDTETCLKNLIEAL 440
           +   TN+TPADVAENLMPKC  +D E CL NLI++L
Sbjct: 420 LLEVTNVTPADVAENLMPKCVNEDVEACLLNLIQSL 455

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	504
TAIR|locus:2178067	514	AATP1 "AAA-ATPase 1" [Arabidop	0.422	0.414	0.544	3.3e-130
TAIR|locus:2098658	530	AT3G28510 [Arabidopsis thalian	0.404	0.384	0.671	3.2e-121
TAIR|locus:2098648	510	AT3G28540 [Arabidopsis thalian	0.404	0.4	0.657	3.8e-114
TAIR|locus:2098638	478	AT3G28520 [Arabidopsis thalian	0.827	0.872	0.472	2e-97
TAIR|locus:2095537	474	AT3G28610 [Arabidopsis thalian	0.809	0.860	0.448	5e-92
TAIR|locus:2095532	477	AT3G28600 [Arabidopsis thalian	0.805	0.851	0.446	9.3e-91
TAIR|locus:2095502	451	AT3G28570 [Arabidopsis thalian	0.349	0.390	0.621	4e-85
TAIR|locus:2178057	470	AT5G40000 [Arabidopsis thalian	0.815	0.874	0.422	1.9e-83
TAIR|locus:2095512	500	AT3G28580 [Arabidopsis thalian	0.579	0.584	0.541	3.2e-81
TAIR|locus:2077997	576	BCS1 "cytochrome BC1 synthesis	0.214	0.187	0.594	5.7e-71

TAIR|locus:2178067 AATP1 "AAA-ATPase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 667 (239.9 bits), Expect = 3.3e-130, Sum P(2) = 3.3e-130
 Identities = 116/213 (54%), Positives = 161/213 (75%)

Query:     1 MVTTGELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFS 60
             MV  GE+W   GS +AS++F   IF+++FPY+L+ + E  +Q L   +YPYI++TFHE+S
Sbjct:     1 MVKMGEVWTNTGSALASLVFIYTIFERFFPYRLREHFEPLAQSLIGFIYPYIQITFHEYS 60

Query:    61 GDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWW 120
             G+R KRS+ + AIQ+YLS  +S  A +  A+ +K ++SI+LSMDD +E+TDEF+G+KVWW
Sbjct:    61 GERFKRSDVYDAIQSYLSKDSSSRAKKLTANTIKGNKSIILSMDDHEEITDEFQGVKVWW 120

Query:   121 VLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKL 180
                K+  ++++ SFYP   E R+Y L FH+  RE+IT  Y+NHV++ GK I VKNR+RKL
Sbjct:   121 QSKKHQSESRAISFYPKADESRFYMLKFHRRDREVITKKYLNHVISEGKTIEVKNRERKL 180

Query:   181 YSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAM 213
             YSNNPS+NW G++ TKWSHV FEHPATFDTLAM
Sbjct:   181 YSNNPSQNWSGYKQTKWSHVTFEHPATFDTLAM 213

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS;IDA

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0010154 "fruit development" evidence=IMP

GO:0010431 "seed maturation" evidence=IMP

GO:0001666 "response to hypoxia" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0005783 "endoplasmic reticulum" evidence=IDA

TAIR|locus:2098658 AT3G28510 [Arabidopsis thaliana (taxid:3702)]

 Score = 688 (247.2 bits), Expect = 3.2e-121, Sum P(2) = 3.2e-121
 Identities = 137/204 (67%), Positives = 156/204 (76%)

Query:   234 PPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLT 293
             PPGTGKSTMIAA+ANFL+YDVYDLELTTV+DNSEL+ LL+DT+SKSI+VIEDIDCSLDLT
Sbjct:   251 PPGTGKSTMIAAIANFLDYDVYDLELTTVKDNSELKKLLLDTTSKSIIVIEDIDCSLDLT 310

Query:   294 GQRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVTLSGLLNFIDGLWSASGEERIIVFTT 353
             GQR                              VTLSGLLN IDGLWSA   E+IIVFTT
Sbjct:   311 GQRKKKKEEDEEEDGEEKKEGEKKPKVDDKQSKVTLSGLLNSIDGLWSACSGEKIIVFTT 370

Query:   354 NYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTP 413
             N+VDKLDPALIRRGRMD HIEMSYC FEAFKVLAKNYL+I++H+LY  IE    ET+M+P
Sbjct:   371 NFVDKLDPALIRRGRMDNHIEMSYCKFEAFKVLAKNYLEIETHDLYGEIERKLEETDMSP 430

Query:   414 ADVAENLMPKCDEDDTETCLKNLI 437
             ADVAE LMPK DE+D + C+K L+
Sbjct:   431 ADVAETLMPKSDEEDADICIKRLV 454

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0001666 "response to hypoxia" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0005783 "endoplasmic reticulum" evidence=IDA

TAIR|locus:2098648 AT3G28540 [Arabidopsis thaliana (taxid:3702)]

 Score = 675 (242.7 bits), Expect = 3.8e-114, Sum P(2) = 3.8e-114
 Identities = 136/207 (65%), Positives = 154/207 (74%)

Query:   234 PPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLT 293
             PPGTGKSTMI+AMANFL YDVYDLELTTV+DNSEL+ L++DT  KSI+VIEDIDCSLDLT
Sbjct:   247 PPGTGKSTMISAMANFLEYDVYDLELTTVKDNSELKKLMLDTKGKSIVVIEDIDCSLDLT 306

Query:   294 GQRXXXXXXXXXXXXXXXXXXXXXXXXXXXX---XXVTLSGLLNFIDGLWSASGEERIIV 350
             GQR                                 VTLSGLLN IDGLWSA   E+IIV
Sbjct:   307 GQRKKKKEEDEDEEEEEKKKEAEKLLKRERGERESKVTLSGLLNAIDGLWSACSGEKIIV 366

Query:   351 FTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETN 410
             FTTNY+DKLDPALIRRGRMD HIEMSYC FEAFKVLAKNYL+I+SH+L+  I+ +  ET+
Sbjct:   367 FTTNYLDKLDPALIRRGRMDNHIEMSYCRFEAFKVLAKNYLEIESHDLFGEIKRLVEETD 426

Query:   411 MTPADVAENLMPKCDEDDTETCLKNLI 437
             M+PADVAENLMPK DEDD + CL  L+
Sbjct:   427 MSPADVAENLMPKSDEDDADICLTRLV 453

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:2098638 AT3G28520 [Arabidopsis thaliana (taxid:3702)]

 Score = 968 (345.8 bits), Expect = 2.0e-97, P = 2.0e-97
 Identities = 210/444 (47%), Positives = 273/444 (61%)

Query:    15 MASVMFASAIFKQYFPYQLQGYVE----KYSQKLFRILYPYIEMTFHEFSGDRLKRSEAF 70
             MAS+MF   ++KQ+ PYQL+ Y+E    KY  KLFR    ++ + F E++G+ L +S A+
Sbjct:     1 MASIMFLWPMYKQFVPYQLREYLENTIQKYLDKLFRRDSNFVYIRFPEYTGEGLSKSRAY 60

Query:    71 SAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGKNIPKTQ 130
               I NYLS+ ++  A R KA   ++S+S+VL +DD + V   F+G+ V W     + K  
Sbjct:    61 DEIGNYLSSISTARAKRLKAKESENSKSLVLCLDDDEAVVVVFQGVNVVWS-STVVDKED 119

Query:   131 SFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNPSKNWY 190
               +    + E RY  LTF   HR++IT  Y++HVL  GK I +KNR+RKLY+NN S ++ 
Sbjct:   120 KHN----SKEGRYLTLTFENHHRDIITNTYIDHVLREGKEIALKNRERKLYTNNDSSSYS 175

Query:   191 GWRSTKWSHVFFEHPATFDTLAMXXXXXXXXXXXXXXXXXXXX----------------- 233
              W    WS+V F H A+F+TL M                                     
Sbjct:   176 SWWEGLWSNVPFNHHASFETLGMDLDKKEEIKKDLIKFTKGKDYYRKVAKPWKRGYLLFG 235

Query:   234 PPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLT 293
             PPGTGKSTMI+A+ANFL YDVYDLELTTV+DN+EL+ L++DT  KSI+VIEDIDCSL+LT
Sbjct:   236 PPGTGKSTMISAIANFLEYDVYDLELTTVKDNAELKKLMLDTKGKSIVVIEDIDCSLELT 295

Query:   294 GQRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVTLSGLLNFIDGLWSASGEERIIVFTT 353
               R                              VTLSGLLN IDGLWSA  +E+II+FTT
Sbjct:   296 EHRKKKKEEDEDKEEKKEAENLKRVSGNNESN-VTLSGLLNAIDGLWSACSDEKIIIFTT 354

Query:   354 NYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTP 413
             N+VD LDPALIRRGRMD HIEMSYC FEAFKVLAKNYL+ +SH+LY  I  +  E +++P
Sbjct:   355 NFVDNLDPALIRRGRMDYHIEMSYCRFEAFKVLAKNYLENESHDLYGEIGRLLEEVDVSP 414

Query:   414 ADVAENLMPKCDEDDTETCLKNLI 437
             ADVAENLMPK DEDD + C + L+
Sbjct:   415 ADVAENLMPKSDEDDADICFRRLV 438

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2095537 AT3G28610 [Arabidopsis thaliana (taxid:3702)]

 Score = 917 (327.9 bits), Expect = 5.0e-92, P = 5.0e-92
 Identities = 202/450 (44%), Positives = 274/450 (60%)

Query:     7 LWATLGSVMASVMFASAIFKQYFPYQLQ--GYVEKYSQKLFRILYPYIEMTFHEFSGDRL 64
             LWAT+  +  + +   AI K++F   +Q   + +++S K      PY+++ F E+   R+
Sbjct:    16 LWATIQQIFPNHL-KIAI-KEFFLSTIQQISFAKRFSDKFINFFSPYVQINFSEYEDYRV 73

Query:    65 KRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGK 124
               + AF  I+ YL   A+  A   +A  V++S+ +VL  D+ + V DE++GI+VWW +  
Sbjct:    74 --NHAFDPIETYLGAKATDKAKHLRASQVRESKGLVLKRDETK-VRDEYEGIRVWWEM-- 128

Query:   125 NIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNN 184
                +T S  +       +  +LTFH+  R+++T  Y+ +V+  GK+I  KN++ KL++NN
Sbjct:   129 ---ETDSAGY-------KTLKLTFHRRSRDIVTNSYIKYVVEEGKSIDAKNKKMKLFTNN 178

Query:   185 PSKNWYGWRSTKWSHVFFEHPATFDTLAMXXXXXXXXXXXXXXXXXXXX----------- 233
             PS +W   +++ W ++ FEHPATF+TLAM                               
Sbjct:   179 PSSHWGSSKTSFWRYIDFEHPATFETLAMDPKKKEQILNDLAAFNNGKDYYKKIGKAWKR 238

Query:   234 ------PPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDID 287
                   PPGTGKSTMIAAMAN LNY +YDLELT +Q+NSELR +L  TS+KSI+VIEDID
Sbjct:   239 GYLLYGPPGTGKSTMIAAMANLLNYSIYDLELTAIQNNSELRKILTATSNKSIIVIEDID 298

Query:   288 CSLDLTGQRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVTLSGLLNFIDGLWSASGEER 347
             CSLDLTG+R                              VTLSGLLNFIDG+WSA G+ER
Sbjct:   299 CSLDLTGKRKKKESNLMIWRKDGDQDNEENKSF------VTLSGLLNFIDGIWSACGQER 352

Query:   348 IIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPA 407
             IIVFTTN++ KLDPALIRRGRMD HIE+SYC FEAFK LAKNYLD+DSH L++ IES+  
Sbjct:   353 IIVFTTNHLAKLDPALIRRGRMDMHIELSYCTFEAFKTLAKNYLDLDSHPLFSKIESLMK 412

Query:   408 ETNMTPADVAENLMPKCDEDDTETCLKNLI 437
             ETN+ PADVAENLM K  E D +  L +LI
Sbjct:   413 ETNIAPADVAENLMKKNRETDADGSLNDLI 442

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0042991 "transcription factor import into nucleus" evidence=RCA

TAIR|locus:2095532 AT3G28600 [Arabidopsis thaliana (taxid:3702)]

 Score = 905 (323.6 bits), Expect = 9.3e-91, P = 9.3e-91
 Identities = 205/459 (44%), Positives = 273/459 (59%)

Query:    10 TLGSVMASVMFASAIFKQYFPYQLQ--------------GYVEKYSQKLFRILYPYIEMT 55
             T GS +AS+ F  A  +Q FP  L+               +V+++S +      PY+E++
Sbjct:     6 TFGSSLASLFFLWATIQQIFPNHLRIAIKEFLISTIQQLSFVQRFSDRFINFFSPYVEIS 65

Query:    56 FHEFSGDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKG 115
             F ++   +   + AF+AI+ YL   A+  A   +A  VK+S+ +VL  D+ + V DE++G
Sbjct:    66 FSQYEDYQF--NHAFAAIETYLGAKATDKAKHLRASQVKESKGLVLKRDETK-VRDEYEG 122

Query:   116 IKVWWVLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKN 175
               VWW +     +T S      TG  R ++LTFH+  R+++T  Y+ +V   GK+I  K+
Sbjct:   123 GTVWWEM-----ETDS------TGY-RTFKLTFHRRSRDIVTDSYIKYVFEEGKSIQAKS 170

Query:   176 RQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMXXXXXXXXXXXXXXXXXXXX-- 233
             +Q KL++NNPS +W   + + W ++ FEHPA+F TLAM                      
Sbjct:   171 KQMKLFTNNPSSHWGTSKKSFWRYIDFEHPASFHTLAMDTKKKEEILNDLAAFSNGKEYY 230

Query:   234 ---------------PPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSK 278
                            PPGTGKSTMIAAMAN LNY +YDLELT +++NSELR LL  TSSK
Sbjct:   231 KKIGKAWKRGYLLHGPPGTGKSTMIAAMANHLNYSIYDLELTAIRNNSELRKLLTATSSK 290

Query:   279 SILVIEDIDCSLDLTGQRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVTLSGLLNFIDG 338
             SI+VIEDIDCSLDLTG+R                              VTLSGLLNFIDG
Sbjct:   291 SIIVIEDIDCSLDLTGKRKKEKNLMTSREDGEQGTEEDKSF-------VTLSGLLNFIDG 343

Query:   339 LWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHEL 398
             +WSA G+ERII+FTTN+ +KLDPALIRRGRMD HIE+SYC FEAFK+LAKNYLD+D+H L
Sbjct:   344 IWSACGQERIIIFTTNHFEKLDPALIRRGRMDMHIELSYCSFEAFKILAKNYLDLDTHPL 403

Query:   399 YAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLI 437
             +  IES+  ET + PADVAENLM K  E D +  LK+LI
Sbjct:   404 FKKIESLLKETKIAPADVAENLMKKNTEIDADGSLKDLI 442

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:2095502 AT3G28570 [Arabidopsis thaliana (taxid:3702)]

 Score = 573 (206.8 bits), Expect = 4.0e-85, Sum P(2) = 4.0e-85
 Identities = 118/190 (62%), Positives = 141/190 (74%)

Query:   234 PPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLT 293
             PPGTGKSTMIAAMAN + Y++YDLELT++ +N EL+ LLI T++KSI+VIEDIDCSLDLT
Sbjct:   244 PPGTGKSTMIAAMANLMKYNIYDLELTSIGNNWELKKLLIATTNKSIIVIEDIDCSLDLT 303

Query:   294 GQRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVTLSGLLNFIDGLWSASGEERIIVFTT 353
             G+R                              VTLSGLLNFIDG+WSA G+ERI+VFTT
Sbjct:   304 GEREVKDLKGDKEGKKSNA--------------VTLSGLLNFIDGIWSACGQERILVFTT 349

Query:   354 NYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTP 413
             N+V KLD ALIRRGRMD HIE+SYC F AFK+LAKNYL+IDSH L+  IES+  ET +TP
Sbjct:   350 NHVGKLDQALIRRGRMDMHIELSYCTFGAFKILAKNYLNIDSHHLFGEIESLLKETKITP 409

Query:   414 ADVAENLMPK 423
             ADVAE++M K
Sbjct:   410 ADVAEHMMAK 419

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:2178057 AT5G40000 [Arabidopsis thaliana (taxid:3702)]

 Score = 836 (299.3 bits), Expect = 1.9e-83, P = 1.9e-83
 Identities = 199/471 (42%), Positives = 271/471 (57%)

Query:     1 MVTTGELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKY----------SQKL---FRI 47
             M+  G+ + ++GS MAS+ F  A  +Q FP  L+  ++++          +Q++   F  
Sbjct:     1 MMMMGDSFGSIGSSMASLFFLWATIQQIFPDHLKITIKEFLLSSFQQLCFAQRVSDHFTN 60

Query:    48 LY-PYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDR 106
             L+ PY+E+ F E   D    ++AFSAI  YL + A+      +   VK+S+ +VL  ++ 
Sbjct:    61 LFSPYVEIHFPE--SDEYSFNQAFSAIDTYLDSKATDKTKHLRGSQVKESKGLVLKRNEA 118

Query:   107 QEVTDEFKGIKVWWVLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLA 166
             + V DE+KG  VWW   + +               RYY+LTFH   R LIT  Y+ +V+ 
Sbjct:   119 K-VRDEYKGANVWW---ERVVDNDG---------NRYYKLTFHNRARTLITNSYIKYVVE 165

Query:   167 GGKAITVKNRQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMXXXXXXXXXXXXX 226
              GK+I VKN+Q +L++NN S  W  +    W  + FEHPA+F TLAM             
Sbjct:   166 EGKSIIVKNKQTRLFTNNLSTQWV-FGQNMWRSIEFEHPASFQTLAMDPKKKEEIVNDLI 224

Query:   227 XXXXXXX-----------------PPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELR 269
                                     PPGTGKSTMI+AMAN LNY++YDLELT V++NSEL+
Sbjct:   225 AFSNGKEYYKKIGKAWKRGYLLYGPPGTGKSTMISAMANLLNYNIYDLELTAVKNNSELK 284

Query:   270 SLLIDTSSKSILVIEDIDCSLDLTGQRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVTL 329
              LL  TSSKSI+VIEDIDCS D T  R                              VTL
Sbjct:   285 KLLTATSSKSIIVIEDIDCSADFTSNRIKKESNSRERYGKEDKDENS----------VTL 334

Query:   330 SGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKN 389
             SGLLNFIDG+WSA G+ERI+VFTTN+++KLDPALIRRGRMD HIE+SYC +EAFK+LAKN
Sbjct:   335 SGLLNFIDGIWSACGQERIVVFTTNHLEKLDPALIRRGRMDMHIELSYCTYEAFKILAKN 394

Query:   390 YLDID---SHELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLI 437
             YLD+D   +H L++ I+++  ET ++PADVAENLM +  + D +  L  LI
Sbjct:   395 YLDLDGDDAHPLFSEIKALLEETKISPADVAENLMARNQQIDVDKSLNLLI 445

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:2095512 AT3G28580 [Arabidopsis thaliana (taxid:3702)]

 Score = 815 (292.0 bits), Expect = 3.2e-81, P = 3.2e-81
 Identities = 170/314 (54%), Positives = 210/314 (66%)

Query:     1 MVTTGELWATLGSVMASVMFASAIFKQYFPYQLQG-YVEKYSQKLFRILYPYIEMTFHEF 59
             M   G+LW   GS +A++MF   IFKQ+FP  L G  +E +  +LF   YPYI++TFHE+
Sbjct:     1 MAMMGQLWTNTGSALATLMFVYTIFKQFFP--LFGPQLEPFLYRLFGRFYPYIQITFHEY 58

Query:    60 SGDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVW 119
             SG+  KRSEA+  IQ+YLS  +S  A + KA+  K S+SIVLSMDD++E+TD+F+GI+VW
Sbjct:    59 SGEHFKRSEAYLGIQSYLSKDSSARAKKLKANTTKGSKSIVLSMDDKEEITDDFEGIRVW 118

Query:   120 WVLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRK 179
             W   K     QSFSFYP   EKRYY L FH+  RE+I   Y+ HV+  GK I  KNR+RK
Sbjct:   119 WQSKKEGATRQSFSFYPEANEKRYYMLRFHRRDREVIIERYLEHVMREGKTIEQKNRERK 178

Query:   180 LYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMXXXXXXXXXXXXXXXXXXXX------ 233
             LYSN P ++ +G  ++KWSHV FEHPATFDTLAM                          
Sbjct:   179 LYSNTPGQS-HG-NNSKWSHVTFEHPATFDTLAMEENKKEEIKSDLIKFSKSKDYYKKIG 236

Query:   234 -----------PPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILV 282
                        PPGTGKSTMIAAMANFL YDVYDLELTTV+DN+ LR LLI+TS+KSI+V
Sbjct:   237 KAWKRGYLLFGPPGTGKSTMIAAMANFLEYDVYDLELTTVKDNTHLRRLLIETSAKSIIV 296

Query:   283 IEDIDCSLDLTGQR 296
             IEDIDCSL+LTGQR
Sbjct:   297 IEDIDCSLNLTGQR 310

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0009737 "response to abscisic acid stimulus" evidence=IEP;RCA

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0009723 "response to ethylene stimulus" evidence=RCA

TAIR|locus:2077997 BCS1 "cytochrome BC1 synthesis" [Arabidopsis thaliana (taxid:3702)]

 Score = 320 (117.7 bits), Expect = 5.7e-71, Sum P(3) = 5.7e-71
 Identities = 66/111 (59%), Positives = 78/111 (70%)

Query:   327 VTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVL 386
             VTLSGLLNFIDGLWS+ G+ERII+FTTNY +KLD AL+R GRMD HI MSYC    FK L
Sbjct:   388 VTLSGLLNFIDGLWSSCGDERIIIFTTNYKEKLDAALLRPGRMDMHIHMSYCTPSTFKAL 447

Query:   387 AKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLI 437
             A NYL+I  H L++ IE     T +TPA+VAE LM     D  +  L+ LI
Sbjct:   448 ALNYLEIKEHRLFSKIEEGIEATEVTPAEVAEQLMRN---DSVDKVLEGLI 495

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0009611 "response to wounding" evidence=RCA

GO:0009612 "response to mechanical stimulus" evidence=RCA

GO:0009627 "systemic acquired resistance" evidence=RCA

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

GO:0010200 "response to chitin" evidence=RCA

GO:0052542 "defense response by callose deposition" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	504
pfam14363	100	pfam14363, AAA_assoc, Domain associated at C-termi	2e-27
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	4e-21
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	3e-11
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	4e-11
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	6e-11
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	4e-10
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	1e-09
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	2e-09
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	5e-09
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	1e-08
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	2e-07
smart00382	148	smart00382, AAA, ATPases associated with a variety	5e-07
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	1e-06
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	3e-06
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	1e-05
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	6e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	9e-05
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	0.001
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	0.002
PRK08116	268	PRK08116, PRK08116, hypothetical protein; Validate	0.002
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	0.002
pfam13207	114	pfam13207, AAA_17, AAA domain	0.002
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	0.003

>gnl|CDD|222710 pfam14363, AAA_assoc, Domain associated at C-terminal with AAA

 Score =  105 bits (264), Expect = 2e-27
 Identities = 38/100 (38%), Positives = 57/100 (57%), Gaps = 5/100 (5%)

Query: 28  YFPYQLQGYVEKYSQKLF-RILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLHAT 86
             P++L+ Y+    ++LF     PY+ +   E+  D   R++ + A + YLST  S  A 
Sbjct: 1   LLPHELREYLSSLLRRLFGSRFSPYLTIVIDEY--DGFSRNQLYDAAEAYLSTKISPSAR 58

Query: 87  RFKADVVKDSQ--SIVLSMDDRQEVTDEFKGIKVWWVLGK 124
           R KA   K S+  S+VLS+DD +EVTD F+G+KVWW    
Sbjct: 59  RLKASKAKKSKNSSLVLSLDDGEEVTDVFEGVKVWWTSVV 98

This domain is found in association with the AAA family, pfam00004. Length = 100

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

 Score = 88.8 bits (221), Expect = 4e-21
 Identities = 48/163 (29%), Positives = 70/163 (42%), Gaps = 46/163 (28%)

Query: 229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLID-------------- 274
            LLYGPPGTGK+T+  A+A  L     ++        SEL S  +               
Sbjct: 1   LLLYGPPGTGKTTLAKAVAKELGAPFIEI------SGSELVSKYVGESEKRLRELFEAAK 54

Query: 275 TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLN 334
             +  ++ I++ID    L G R                       GG  +S+  ++ LL 
Sbjct: 55  KLAPCVIFIDEIDA---LAGSR---------------------GSGGDSESRRVVNQLLT 90

Query: 335 FIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSY 377
            +DG  ++S  + I++  TN  DKLDPAL  RGR D+ IE   
Sbjct: 91  ELDGF-TSSLSKVIVIAATNRPDKLDPAL-LRGRFDRIIEFPL 131

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

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

 Score = 65.0 bits (159), Expect = 3e-11
 Identities = 62/171 (36%), Positives = 82/171 (47%), Gaps = 45/171 (26%)

Query: 219 EEIKKDLKKGYLLYGPPGTGKSTMIA-AMAN-----FLNYDVYDLELTTVQ----DNSEL 268
           EE+  D  KG LLYGPPGTGK T++A A+AN     F+   V   EL  VQ    + + L
Sbjct: 178 EELGIDPPKGVLLYGPPGTGK-TLLAKAVANQTDATFIR--VVGSEL--VQKYIGEGARL 232

Query: 269 -RSL--LIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKS 325
            R L  L    + SI+ I++ID                        I  K  + G S   
Sbjct: 233 VRELFELAREKAPSIIFIDEIDA-----------------------IGAKRFDSGTSGDR 269

Query: 326 KV--TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIE 374
           +V  T+  LLN +DG +   G  ++I   TN  D LDPAL+R GR D+ IE
Sbjct: 270 EVQRTMLELLNQLDG-FDPRGNVKVI-MATNRPDILDPALLRPGRFDRKIE 318

Length = 406

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

 Score = 64.4 bits (157), Expect = 4e-11
 Identities = 54/165 (32%), Positives = 84/165 (50%), Gaps = 31/165 (18%)

Query: 219 EEIKKDLKKGYLLYGPPGTGKSTMIAAMAN-----FLNYDVYDLELTTVQDNSEL-RSL- 271
           ++I     KG +LYGPPGTGK+ +  A+AN     FL     +L    + D  +L R L 
Sbjct: 210 DDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLGDGPKLVRELF 269

Query: 272 -LIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLS 330
            + + ++ SI+ I++ID            K  D                GG K+ + T+ 
Sbjct: 270 RVAEENAPSIVFIDEIDAI--------GTKRYDATS-------------GGEKEIQRTML 308

Query: 331 GLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEM 375
            LLN +DG + + G+ ++I+  TN ++ LDPALIR GR+D+ IE 
Sbjct: 309 ELLNQLDG-FDSRGDVKVIM-ATNRIESLDPALIRPGRIDRKIEF 351

Length = 438

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

 Score = 64.5 bits (157), Expect = 6e-11
 Identities = 56/180 (31%), Positives = 80/180 (44%), Gaps = 42/180 (23%)

Query: 203 EHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV 262
           +HP  F+ L +E  K          G LLYGPPGTGK+ +  A+AN        +     
Sbjct: 199 KHPELFEHLGIEPPK----------GVLLYGPPGTGKTLLAKAVANEAGAYFISI----- 243

Query: 263 QDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDK------EEKNPIEKKE 316
            +  E+ S     S + +               RE  KE +E+       +E + I  K 
Sbjct: 244 -NGPEIMSKYYGESEERL---------------REIFKEAEENAPSIIFIDEIDAIAPKR 287

Query: 317 KEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVF-TTNYVDKLDPALIRRGRMDKHIEM 375
           +E  G  + +V ++ LL  +DGL    G  R+IV   TN  D LDPAL R GR D+ I +
Sbjct: 288 EEVTGEVEKRV-VAQLLTLMDGL---KGRGRVIVIGATNRPDALDPALRRPGRFDREIVI 343

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|214386 CHL00176, ftsH, cell division protein; Validated

 Score = 61.6 bits (150), Expect = 4e-10
 Identities = 63/238 (26%), Positives = 97/238 (40%), Gaps = 52/238 (21%)

Query: 181 YSNNPSKNWYGWRSTKWS-HVFFEHPATFDTLA-METKKKE--EIKKDLK---------- 226
           +   P +N   +  +K    +  +   TF  +A +E  K+E  E+   LK          
Sbjct: 154 FKGGPGQNLMNFGKSKARFQMEADTGITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGA 213

Query: 227 ---KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD------NSELRSLLIDTSS 277
              KG LL GPPGTGK+ +  A+A       + +  +   +       + +R L      
Sbjct: 214 KIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVGAARVRDLFKKAKE 273

Query: 278 KS--ILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNF 335
            S  I+ I++ID    +  QR                       GG+ + + TL+ LL  
Sbjct: 274 NSPCIVFIDEIDA---VGRQRGAGI------------------GGGNDEREQTLNQLLTE 312

Query: 336 IDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEA----FKVLAKN 389
           +DG     G   I++  TN VD LD AL+R GR D+ I +S    E      KV A+N
Sbjct: 313 MDGFKGNKG--VIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARN 368

Length = 638

>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 = 56.8 bits (137), Expect = 1e-09
 Identities = 34/161 (21%), Positives = 51/161 (31%), Gaps = 37/161 (22%)

Query: 226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIED 285
            K  LLYGPPGTGK+T+  A+AN L                    L ++ S    L+   
Sbjct: 19  PKNLLLYGPPGTGKTTLARAIANELFRPGAPF-------------LYLNASD---LLEGL 62

Query: 286 IDCSLDLTGQREKKKEKDEDKEEKNP-------IEKKEKEDGGSKKSKVTLSGLLNFIDG 338
           +   L          E     E+  P       I+   +            + LL  ++ 
Sbjct: 63  VVAELFGHFLVRLLFEL---AEKAKPGVLFIDEIDSLSRG---------AQNALLRVLET 110

Query: 339 L--WSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSY 377
           L       E   ++  TN     D       R+D  I +  
Sbjct: 111 LNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 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|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family

 Score = 58.7 bits (142), Expect = 2e-09
 Identities = 53/165 (32%), Positives = 77/165 (46%), Gaps = 31/165 (18%)

Query: 219 EEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLN---YDVYDLELTT--VQDNSEL-RSL- 271
           EE+  +  KG LLYGPPGTGK+ +  A+A+  N     V   EL    + + + L R + 
Sbjct: 149 EEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIGEGARLVREIF 208

Query: 272 -LIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLS 330
            L    + SI+ I++ID            K  D                 G ++ + TL 
Sbjct: 209 ELAKEKAPSIIFIDEIDAI--------AAKRTDSGT-------------SGDREVQRTLM 247

Query: 331 GLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEM 375
            LL  +DG +   G  ++I   TN  D LDPAL+R GR D+ IE+
Sbjct: 248 QLLAELDG-FDPRGNVKVIA-ATNRPDILDPALLRPGRFDRIIEV 290

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

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

 Score = 57.9 bits (141), Expect = 5e-09
 Identities = 58/163 (35%), Positives = 78/163 (47%), Gaps = 45/163 (27%)

Query: 227 KGYLLYGPPGTGKSTMIA-AMAN-----FLNYDVYDLELTTVQ----DNSEL-RSL--LI 273
           KG LLYGPPGTGK T++A A+A+     F+   V   EL  VQ    + + L R L  L 
Sbjct: 166 KGVLLYGPPGTGK-TLLAKAVAHETNATFIR--VVGSEL--VQKFIGEGARLVRELFELA 220

Query: 274 DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV--TLSG 331
              + SI+ I++ID                        I  K  + G S   +V  TL  
Sbjct: 221 REKAPSIIFIDEIDA-----------------------IAAKRTDSGTSGDREVQRTLMQ 257

Query: 332 LLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIE 374
           LL  +DG +   G  +II   TN +D LDPA++R GR D+ IE
Sbjct: 258 LLAEMDG-FDPRGNVKIIA-ATNRIDILDPAILRPGRFDRIIE 298

Length = 389

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

 Score = 57.1 bits (138), Expect = 1e-08
 Identities = 63/257 (24%), Positives = 97/257 (37%), Gaps = 56/257 (21%)

Query: 210 TLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIA-AMANFLNYDVYDLELTTVQDNSEL 268
               E  +K  ++    KG LLYGPPGTGK T++A A+A             +V+  SEL
Sbjct: 262 LKRPELFRKLGLRPP--KGVLLYGPPGTGK-TLLAKAVALESR-----SRFISVKG-SEL 312

Query: 269 RSLLIDTSSKSILVIEDIDCSLDLTGQREKK-KEKDEDKEEKNP----------IEKKEK 317
                   SK +             G+ EK  +E  E   +  P          +     
Sbjct: 313 -------LSKWV-------------GESEKNIRELFEKARKLAPSIIFIDEIDSLASGRG 352

Query: 318 EDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVF-TTNYVDKLDPALIRRGRMDKHIE-- 374
                   +V +  LL  +DG+      E ++V   TN  D LDPAL+R GR D+ I   
Sbjct: 353 PSEDGSGRRV-VGQLLTELDGI---EKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVP 408

Query: 375 --MSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAE-----NLMPKCDED 427
                   E FK+  ++     + ++     +       + AD+A       L    +  
Sbjct: 409 LPDLEERLEIFKIHLRDKKPPLAEDVDLEELA-EITEGYSGADIAALVREAALEALREAR 467

Query: 428 DTETCLKNLIEALKAAK 444
             E  L + ++ALK  K
Sbjct: 468 RREVTLDDFLDALKKIK 484

Length = 494

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

 Score = 53.0 bits (127), Expect = 2e-07
 Identities = 60/264 (22%), Positives = 104/264 (39%), Gaps = 43/264 (16%)

Query: 227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDI 286
           KG LL+GPPGTGK+ +  A+A     +   +         E+ S  +  S K+I  I   
Sbjct: 488 KGVLLFGPPGTGKTLLAKAVATESGANFIAVR------GPEILSKWVGESEKAIREI--- 538

Query: 287 DCSLDLTGQREKKKEKDEDK---EEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS 343
                      K ++        +E + I         +  +   ++ LL  +DG+   S
Sbjct: 539 ---------FRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELS 589

Query: 344 GEERIIVFTTNYVDKLDPALIRRGRMDKHIEM----SYCCFEAFKVLAKNYL---DIDSH 396
               +++  TN  D LDPAL+R GR D+ I +         E FK+  ++     D+D  
Sbjct: 590 NV--VVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLE 647

Query: 397 ELY--------AVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKEEAI 448
           EL         A IE++  E  M     +     K   +  E      ++       EA+
Sbjct: 648 ELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKEKLEVGEEEFLKDLKVEMRHFLEAL 707

Query: 449 KK-----TEEEARKFSRIENRYRK 467
           KK     ++E+  ++ R+    ++
Sbjct: 708 KKVKPSVSKEDMLRYERLAKELKR 731

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

 Score = 48.9 bits (116), Expect = 5e-07
 Identities = 36/159 (22%), Positives = 56/159 (35%), Gaps = 25/159 (15%)

Query: 226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVY-----DLELTTVQDNSELRSLLIDTSSKSI 280
            +  L+ GPPG+GK+T+  A+A  L          D E    +   +L  +++     S 
Sbjct: 2   GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASG 61

Query: 281 LVIEDIDCSLDLTGQREKKKEK----DEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI 336
                +           K K      DE       I           + +  L  L    
Sbjct: 62  SGELRLR---LALALARKLKPDVLILDE-------ITS-----LLDAEQEALLLLLEELR 106

Query: 337 DGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEM 375
             L   S +   ++ TTN    L PAL+RR R D+ I +
Sbjct: 107 LLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVL 144

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

 Score = 50.1 bits (120), Expect = 1e-06
 Identities = 50/171 (29%), Positives = 76/171 (44%), Gaps = 39/171 (22%)

Query: 219 EEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYD---VYDLELTTVQD-----NSELRS 270
           E+I  D  +G LLYGPPGTGK+ +  A+A+        V   E   VQ         +R 
Sbjct: 172 EQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEF--VQKYLGEGPRMVRD 229

Query: 271 L--LIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKK--EKEDGGSKKSK 326
           +  L   ++ SI+ I+++D                        I  K  + + G  ++ +
Sbjct: 230 VFRLARENAPSIIFIDEVDS-----------------------IATKRFDAQTGADREVQ 266

Query: 327 VTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSY 377
             L  LLN +DG    +  + I+   TN  D LDPAL+R GR+D+ IE   
Sbjct: 267 RILLELLNQMDGFDQTTNVKVIM--ATNRADTLDPALLRPGRLDRKIEFPL 315

Length = 398

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

 Score = 49.3 bits (117), Expect = 3e-06
 Identities = 48/167 (28%), Positives = 76/167 (45%), Gaps = 29/167 (17%)

Query: 214 ETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMAN-----FLNYDVYD-LELTTVQDNSE 267
           E  + +++   + KG L+ GPPGTGK+ +  A+A      F      D +E+      S 
Sbjct: 173 EPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASR 232

Query: 268 LRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV 327
           +R +  + + K+   I  ID  +D  G+                 ++     GG  + + 
Sbjct: 233 VRDMF-EQAKKAAPCIIFID-EIDAVGR-----------------QRGAGLGGGHDEREQ 273

Query: 328 TLSGLLNFIDGLWSASGEERIIVFT-TNYVDKLDPALIRRGRMDKHI 373
           TL+ +L  +DG     G E IIV   TN  D LDPAL+R GR D+ +
Sbjct: 274 TLNQMLVEMDGF---EGNEGIIVIAATNRPDVLDPALLRPGRFDRQV 317

Length = 644

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

 Score = 47.3 bits (113), Expect = 1e-05
 Identities = 48/157 (30%), Positives = 71/157 (45%), Gaps = 35/157 (22%)

Query: 227 KGYLLYGPPGTGKSTMIA-AMANFLNYDVYD------LELTTVQDNSELRSLLIDT--SS 277
           KG LL GPPGTGK T++A A+A       +       +E+      S +R L      ++
Sbjct: 184 KGVLLVGPPGTGK-TLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNA 242

Query: 278 KSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID 337
             I+ I++ID      G+                 ++     GG+ + + TL+ LL  +D
Sbjct: 243 PCIIFIDEID----AVGR-----------------QRGAGLGGGNDEREQTLNQLLVEMD 281

Query: 338 GLWSASGEERIIVFT-TNYVDKLDPALIRRGRMDKHI 373
           G     G   +IV   TN  D LDPAL+R GR D+ I
Sbjct: 282 GFGGNEG---VIVIAATNRPDVLDPALLRPGRFDRQI 315

Length = 596

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

 Score = 45.2 bits (107), Expect = 6e-05
 Identities = 63/275 (22%), Positives = 101/275 (36%), Gaps = 56/275 (20%)

Query: 212 AMETKKKEEIKK---DLKKGYLLYGPPGTGKSTMIAAMAN----FLNYDV-YDLELTTVQ 263
            +  K+ E  KK   +  KG LL+GPPGTGK+ +  A+AN    FL+ +    L     +
Sbjct: 1   ELPLKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALANEGAEFLSINGPEILSKYVGE 60

Query: 264 DNSELRSLLID--TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGG 321
               LR L  +    + SI+ I++ID                          K+  + G 
Sbjct: 61  SELRLRELFEEAEKLAPSIIFIDEID----------------------ALAPKRSSDQGE 98

Query: 322 SKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSY---- 377
            ++    ++ LL  +DGL      + I++  TN  D LDPA  R GR D+ IE++     
Sbjct: 99  VERR--VVAQLLALMDGL---KRGQVIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDEA 153

Query: 378 CCFEAFKVLAKNYL---DIDSHEL--------YAVIESMPAETNMTPADVAENLMPKCDE 426
              E  ++  +            L         A + ++  E  +         +    E
Sbjct: 154 GRLEILQIHTRLMFLGPPGTGKTLAARTVGKSGADLGALAKEAALRE---LRRAIDLVGE 210

Query: 427 DDTETCLKNLIEALKAAKEEAIKKTEEEARKFSRI 461
               T   +  EALK          E+E      I
Sbjct: 211 YIGVT-EDDFEEALKKVLPSRGVLFEDEDVTLDDI 244

Length = 494

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

 Score = 44.5 bits (106), Expect = 9e-05
 Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 8/61 (13%)

Query: 205 PATFDTLAMETKKKEEI--------KKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYD 256
           P T   +    K KE++        K   KK  LLYGPPG GK+++  A+AN   ++V +
Sbjct: 10  PKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYGWEVIE 69

Query: 257 L 257
           L
Sbjct: 70  L 70

Length = 482

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

 Score = 41.1 bits (97), Expect = 0.001
 Identities = 22/58 (37%), Positives = 32/58 (55%), Gaps = 4/58 (6%)

Query: 320 GGSKKSKVTLSGLLNFIDGLWSASGEERIIVFT-TNYVDKLDPALIRRGRMDKHIEMS 376
           GG+ + + TL+ LL  +DG         +IV   TN  D LDPAL+R GR D+ + + 
Sbjct: 169 GGNDEREQTLNQLLVEMDGF---GTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVD 223

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|200312 TIGR03689, pup_AAA, proteasome ATPase

 Score = 40.5 bits (95), Expect = 0.002
 Identities = 20/30 (66%), Positives = 22/30 (73%), Gaps = 4/30 (13%)

Query: 224 DLK--KGYLLYGPPGTGKSTMIA-AMANFL 250
            LK  KG LLYGPPG GK T+IA A+AN L
Sbjct: 212 GLKPPKGVLLYGPPGCGK-TLIAKAVANSL 240

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|236153 PRK08116, PRK08116, hypothetical protein; Validated

 Score = 40.0 bits (94), Expect = 0.002
 Identities = 18/36 (50%), Positives = 24/36 (66%), Gaps = 1/36 (2%)

Query: 215 TKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFL 250
            KK EE+KK+   G LL+G  GTGK+ + A +AN L
Sbjct: 104 VKKFEEMKKE-NVGLLLWGSVGTGKTYLAACIANEL 138

Length = 268

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

 Score = 40.2 bits (94), Expect = 0.002
 Identities = 43/164 (26%), Positives = 65/164 (39%), Gaps = 29/164 (17%)

Query: 216 KKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT-----VQDNSELRS 270
           +  E       K  L YGPPGTGK+ M  A+AN     +  ++ T      V D +    
Sbjct: 141 ENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGDGARRIH 200

Query: 271 LLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLS 330
            L + + K+   I  ID  LD      + +E   D  E                    ++
Sbjct: 201 ELYERARKAAPCIVFID-ELDAIALDRRYQELRGDVSE-------------------IVN 240

Query: 331 GLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIE 374
            LL  +DG+     E  + +  TN  + LDPA+  R R ++ IE
Sbjct: 241 ALLTELDGI--KENEGVVTIAATNRPELLDPAI--RSRFEEEIE 280

Length = 368

>gnl|CDD|221983 pfam13207, AAA_17, AAA domain

 Score = 37.7 bits (87), Expect = 0.002
 Identities = 13/30 (43%), Positives = 18/30 (60%)

Query: 229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLE 258
            L+ GPPG+GKST+   +A  L   V  L+
Sbjct: 2   ILITGPPGSGKSTLAKKLAEKLGIPVISLD 31

Length = 114

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

 Score = 39.7 bits (94), Expect = 0.003
 Identities = 10/26 (38%), Positives = 16/26 (61%)

Query: 230 LLYGPPGTGKSTMIAAMANFLNYDVY 255
           +L+GPPGTGK+T+   +A   +    
Sbjct: 40  ILWGPPGTGKTTLARIIAGATDAPFE 65

Length = 413

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	504
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	100.0
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	100.0
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	100.0
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	100.0
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	100.0
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.98
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.98
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.97
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.97
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.97
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.97
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.97
CHL00195	489	ycf46 Ycf46; Provisional	99.96
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.96
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.96
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.96
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.96
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.96
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.95
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.95
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.95
CHL00206	2281	ycf2 Ycf2; Provisional	99.95
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.95
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.95
CHL00176	638	ftsH cell division protein; Validated	99.95
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.95
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.94
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.94
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.94
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.94
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.93
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.92
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	99.92
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.91
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.9
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.88
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.88
PF14363	98	AAA_assoc: Domain associated at C-terminal with AA	99.83
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.83
PF00004	132	AAA: ATPase family associated with various cellula	99.82
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.79
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.78
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.75
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.73
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.72
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.69
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.68
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.68
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.67
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.67
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.67
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.66
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.65
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.64
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.63
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.63
CHL00181	287	cbbX CbbX; Provisional	99.62
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.62
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.62
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.61
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.61
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.6
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.6
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.6
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.6
PRK04195	482	replication factor C large subunit; Provisional	99.59
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.59
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.59
PRK10865	857	protein disaggregation chaperone; Provisional	99.59
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.58
PHA02544	316	44 clamp loader, small subunit; Provisional	99.58
PLN03025	319	replication factor C subunit; Provisional	99.58
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.58
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.57
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.57
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.57
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.57
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.57
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.57
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.57
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.56
PRK13342	413	recombination factor protein RarA; Reviewed	99.56
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.55
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.55
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.55
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.54
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.53
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.52
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	99.52
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.52
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.52
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.52
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.52
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.51
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.51
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.51
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.5
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.5
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.49
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.49
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.48
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.48
PRK12402	337	replication factor C small subunit 2; Reviewed	99.47
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.47
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.46
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.46
PRK06893	229	DNA replication initiation factor; Validated	99.46
CHL00095	821	clpC Clp protease ATP binding subunit	99.46
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	99.45
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.41
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.41
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.41
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.39
PRK13341	725	recombination factor protein RarA/unknown domain f	99.39
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.39
COG0714	329	MoxR-like ATPases [General function prediction onl	99.39
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.38
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.38
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.37
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.37
KOG2028	554	consensus ATPase related to the helicase subunit o	99.36
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.36
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.36
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.36
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.36
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.35
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.34
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.34
PRK08727	233	hypothetical protein; Validated	99.33
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.33
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.33
PHA02244	383	ATPase-like protein	99.33
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.32
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.31
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.3
PRK08084	235	DNA replication initiation factor; Provisional	99.3
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.28
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.27
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.26
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.26
PRK10865	857	protein disaggregation chaperone; Provisional	99.26
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.25
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.25
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.22
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.21
PRK12422	445	chromosomal replication initiation protein; Provis	99.21
CHL00095	821	clpC Clp protease ATP binding subunit	99.2
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.2
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.19
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.19
PRK05642	234	DNA replication initiation factor; Validated	99.18
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.18
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.18
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.18
PRK07952	244	DNA replication protein DnaC; Validated	99.17
PF07726	131	AAA_3: ATPase family associated with various cellu	99.17
PRK06620	214	hypothetical protein; Validated	99.16
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.15
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.14
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.12
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.12
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.1
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	99.1
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.1
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.1
PRK13531	498	regulatory ATPase RavA; Provisional	99.08
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.07
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.07
smart00382	148	AAA ATPases associated with a variety of cellular	99.05
PRK08116	268	hypothetical protein; Validated	99.05
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.04
PRK06526	254	transposase; Provisional	99.03
PRK08181	269	transposase; Validated	99.03
smart00350	509	MCM minichromosome maintenance proteins.	99.01
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.0
PRK09087	226	hypothetical protein; Validated	98.98
PRK12377	248	putative replication protein; Provisional	98.98
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.95
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.94
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	98.94
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.91
PRK04132	846	replication factor C small subunit; Provisional	98.91
PRK06090	319	DNA polymerase III subunit delta'; Validated	98.9
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.9
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.89
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.85
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.84
PRK08939	306	primosomal protein DnaI; Reviewed	98.81
PRK09183	259	transposase/IS protein; Provisional	98.8
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.8
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	98.8
PRK11608	326	pspF phage shock protein operon transcriptional ac	98.79
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.79
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	98.77
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	98.77
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	98.77
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.75
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.74
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	98.74
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.74
PRK09862	506	putative ATP-dependent protease; Provisional	98.73
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.68
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.68
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.66
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.65
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	98.64
PRK06835	329	DNA replication protein DnaC; Validated	98.63
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.62
PRK05917	290	DNA polymerase III subunit delta'; Validated	98.6
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.6
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	98.57
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.56
PRK06921	266	hypothetical protein; Provisional	98.55
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.55
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.54
PRK05818	261	DNA polymerase III subunit delta'; Validated	98.53
PF13173	128	AAA_14: AAA domain	98.51
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.5
COG1221	403	PspF Transcriptional regulators containing an AAA-	98.5
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.49
PRK15424	538	propionate catabolism operon regulatory protein Pr	98.49
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	98.47
PRK05022	509	anaerobic nitric oxide reductase transcription reg	98.47
PRK07276	290	DNA polymerase III subunit delta'; Validated	98.44
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.43
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	98.43
PRK07132	299	DNA polymerase III subunit delta'; Validated	98.43
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.42
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	98.41
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	98.41
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	98.34
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.33
PF05729	166	NACHT: NACHT domain	98.3
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.29
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.28
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.24
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.21
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.2
PF08740	187	BCS1_N: BCS1 N terminal; InterPro: IPR014851 AAA A	98.18
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.16
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.15
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	98.15
PHA02624	647	large T antigen; Provisional	98.14
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.12
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	98.12
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.09
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	98.07
PRK15115	444	response regulator GlrR; Provisional	98.06
PHA00729	226	NTP-binding motif containing protein	98.06
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	98.02
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.01
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	98.0
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.95
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.93
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	97.93
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.9
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	97.88
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	97.88
PHA02774	613	E1; Provisional	97.87
PRK07261	171	topology modulation protein; Provisional	97.85
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.84
PRK10365	441	transcriptional regulatory protein ZraR; Provision	97.83
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.83
COG2204	464	AtoC Response regulator containing CheY-like recei	97.77
PRK15455	644	PrkA family serine protein kinase; Provisional	97.75
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.74
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	97.69
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	97.67
PRK00131	175	aroK shikimate kinase; Reviewed	97.66
COG1241	682	MCM2 Predicted ATPase involved in replication cont	97.66
PRK08118	167	topology modulation protein; Reviewed	97.66
PRK13947	171	shikimate kinase; Provisional	97.52
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.51
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	97.51
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.5
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.5
PRK00625	173	shikimate kinase; Provisional	97.49
PRK03839	180	putative kinase; Provisional	97.49
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.49
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.46
PRK13949	169	shikimate kinase; Provisional	97.45
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	97.43
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.41
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	97.38
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	97.36
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	97.35
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	97.35
PRK13765	637	ATP-dependent protease Lon; Provisional	97.35
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.32
PRK06581	263	DNA polymerase III subunit delta'; Validated	97.31
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.31
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.31
PRK06217	183	hypothetical protein; Validated	97.3
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.3
PF14516	331	AAA_35: AAA-like domain	97.29
PRK13948	182	shikimate kinase; Provisional	97.28
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.28
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.27
PRK14532	188	adenylate kinase; Provisional	97.26
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.26
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	97.26
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.23
PRK13946	184	shikimate kinase; Provisional	97.23
PRK14531	183	adenylate kinase; Provisional	97.23
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.23
COG1855	604	ATPase (PilT family) [General function prediction	97.22
PRK05057	172	aroK shikimate kinase I; Reviewed	97.22
PRK08233	182	hypothetical protein; Provisional	97.21
PTZ00202	550	tuzin; Provisional	97.2
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.19
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.18
PRK03731	171	aroL shikimate kinase II; Reviewed	97.18
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.17
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.15
) 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	97.14
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	97.14
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.13
PRK09376	416	rho transcription termination factor Rho; Provisio	97.13
PRK06762	166	hypothetical protein; Provisional	97.13
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.12
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	97.11
PF13245	76	AAA_19: Part of AAA domain	97.1
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	97.09
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.09
PRK04296	190	thymidine kinase; Provisional	97.09
PRK04841	903	transcriptional regulator MalT; Provisional	97.08
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.06
PRK14530	215	adenylate kinase; Provisional	97.06
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	97.05
PRK02496	184	adk adenylate kinase; Provisional	97.03
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.03
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.02
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.01
PRK06547	172	hypothetical protein; Provisional	97.0
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.99
PRK14528	186	adenylate kinase; Provisional	96.98
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.97
COG1485	367	Predicted ATPase [General function prediction only	96.96
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.95
PRK06067	234	flagellar accessory protein FlaH; Validated	96.94
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.92
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	96.92
PTZ00088	229	adenylate kinase 1; Provisional	96.91
TIGR01613	304	primase_Cterm phage/plasmid primase, P4 family, C-	96.9
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.9
PRK14529	223	adenylate kinase; Provisional	96.88
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.86
PRK00279	215	adk adenylate kinase; Reviewed	96.85
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	96.84
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.84
PRK04182	180	cytidylate kinase; Provisional	96.84
COG4650	531	RtcR Sigma54-dependent transcription regulator con	96.84
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.84
PRK00409	782	recombination and DNA strand exchange inhibitor pr	96.82
PLN02199	303	shikimate kinase	96.82
PLN02200	234	adenylate kinase family protein	96.8
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	96.79
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.79
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	96.78
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.77
PRK04040	188	adenylate kinase; Provisional	96.77
PRK14527	191	adenylate kinase; Provisional	96.77
PRK13808	333	adenylate kinase; Provisional	96.77
PRK01184	184	hypothetical protein; Provisional	96.75
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	96.75
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.75
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	96.74
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.74
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.74
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.73
PRK13764	602	ATPase; Provisional	96.72
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	96.72
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.72
cd01128	249	rho_factor Transcription termination factor rho is	96.72
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	96.7
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	96.7
smart00487	201	DEXDc DEAD-like helicases superfamily.	96.69
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.69
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.68
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.67
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.66
PRK12608	380	transcription termination factor Rho; Provisional	96.66
PRK14526	211	adenylate kinase; Provisional	96.65
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	96.65
PRK06696	223	uridine kinase; Validated	96.65
PF06431	417	Polyoma_lg_T_C: Polyomavirus large T antigen C-ter	96.64
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.64
PHA02530	300	pseT polynucleotide kinase; Provisional	96.62
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.62
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.62
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.62
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.62
PRK11823	446	DNA repair protein RadA; Provisional	96.61
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	96.59
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.58
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.58
PRK10646	153	ADP-binding protein; Provisional	96.57
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.56
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	96.56
PRK13889	988	conjugal transfer relaxase TraA; Provisional	96.55
PRK10436	462	hypothetical protein; Provisional	96.55
KOG2383	467	consensus Predicted ATPase [General function predi	96.53
KOG0477	854	consensus DNA replication licensing factor, MCM2 c	96.53
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	96.52
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.51
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	96.5
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	96.48
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	96.47
TIGR00767	415	rho transcription termination factor Rho. Members	96.47
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	96.45
PHA00350	399	putative assembly protein	96.45
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.45
TIGR00376	637	DNA helicase, putative. The gene product may repre	96.45
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	96.43
PRK05541	176	adenylylsulfate kinase; Provisional	96.38
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	96.37
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	96.34
PF00488	235	MutS_V: MutS domain V C-terminus.; InterPro: IPR00	96.33
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	96.32
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	96.32
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.3
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.28
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	96.28
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.28
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	96.27
PRK12338	319	hypothetical protein; Provisional	96.26
PRK00889	175	adenylylsulfate kinase; Provisional	96.25
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	96.24
KOG0481	729	consensus DNA replication licensing factor, MCM5 c	96.24
COG0802	149	Predicted ATPase or kinase [General function predi	96.22
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.22
PRK11545	163	gntK gluconate kinase 1; Provisional	96.21
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.21
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.21
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.2
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.2
PRK09825	176	idnK D-gluconate kinase; Provisional	96.2
KOG0482	721	consensus DNA replication licensing factor, MCM7 c	96.19
PLN02674	244	adenylate kinase	96.19
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	96.19
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.16
TIGR02533	486	type_II_gspE general secretory pathway protein E.	96.16
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	96.16
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	96.15
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	96.15
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.15
PRK08099	399	bifunctional DNA-binding transcriptional repressor	96.15
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	96.15
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.14
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.14
PLN02165	334	adenylate isopentenyltransferase	96.14
cd03286	218	ABC_MSH6_euk MutS6 homolog in eukaryotes. The MutS	96.14
PRK13826	1102	Dtr system oriT relaxase; Provisional	96.12
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	96.11
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	96.11
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.09
PRK06761	282	hypothetical protein; Provisional	96.09
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	96.08
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	96.07
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.07
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.07
PLN02459	261	probable adenylate kinase	96.07
PRK05480	209	uridine/cytidine kinase; Provisional	96.07
PRK14730	195	coaE dephospho-CoA kinase; Provisional	96.04
PRK06851	367	hypothetical protein; Provisional	96.03
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	96.03
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.02
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.02
PHA00012	361	I assembly protein	96.01
KOG3354	191	consensus Gluconate kinase [Carbohydrate transport	96.01
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	96.01
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	96.0
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.0
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.0
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.99
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.99
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	95.94
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.94
PRK05973	237	replicative DNA helicase; Provisional	95.94
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.93
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.93
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	95.91
KOG1808	1856	consensus AAA ATPase containing von Willebrand fac	95.91
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	95.9
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	95.88
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	95.88
PRK14021	542	bifunctional shikimate kinase/3-dehydroquinate syn	95.87
PRK00081	194	coaE dephospho-CoA kinase; Reviewed	95.87
cd03239	178	ABC_SMC_head The structural maintenance of chromos	95.85
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.84
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	95.83
PRK08356	195	hypothetical protein; Provisional	95.83
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	95.83
PF13479	213	AAA_24: AAA domain	95.83
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	95.82
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	95.8
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	95.8
PRK09354	349	recA recombinase A; Provisional	95.79
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	95.77

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.4e-90  Score=701.12  Aligned_cols=426  Identities=49%  Similarity=0.783  Sum_probs=391.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHhhcccCCcEEEEEeeccCCcCCccHHHHHHHHHHhcccCCCC
Q 037859            6 ELWATLGSVMASVMFASAIFKQYFPYQLQGYVEKYSQKLFRILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLHA   85 (504)
Q Consensus         6 ~~~~~~~S~~~~~~~~~~~~~~~~P~~l~~~i~~~~~~l~~~~~~~~ti~i~e~~~~~~~~n~~y~~~~~~ls~~~~~~~   85 (504)
                      .+|+.++|++|++||+|+++++++|..++.|+..++++|+.++++|.++.+.|+.|  +..|++|.+++.||+++.++.+
T Consensus         2 ~~~~~~~s~~~~~~~~~~~~~~~~p~~~~~y~~~~~~~l~g~~s~~~~~~~~e~~g--~~~n~~~~aie~yl~~k~~~~~   79 (457)
T KOG0743|consen    2 SVFTAYASLLGSLMFIKSMLQDIIPPSINPYFISALRGLFGVFSSYALIRIGEQDG--VFRNQLYVAIEVYLSSKSSAIA   79 (457)
T ss_pred             CccchhHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHhhccCcccEEEEeehhcc--chHHHHHHHHHHhhhccchhhh
Confidence            57999999999999999999999999999999999999999999999999999855  8999999999999999999888


Q ss_pred             CceEEEeeCCCCceEEEecCCCceeeeecCeEEEEEEeeecCCCCcccccCCCCCeeEEEEEEecccchhhhhhhHHHHH
Q 037859           86 TRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVL  165 (504)
Q Consensus        86 ~~l~~~~~~~~~~~~~~~~~~~~v~d~f~g~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~yl~~~l  165 (504)
                      .+++.+...+++++++.++++++|.|.|+|++++|......++.+.+.  +...+.|+++|+|+++||+.|+.+||+++.
T Consensus        80 ~rl~~~~~~~s~~~~l~~~~~~~i~d~f~gv~~~w~~~~~~~~~~~~~--~~~~~~r~~~L~f~k~~~e~V~~syl~~v~  157 (457)
T KOG0743|consen   80 KRLTQNLSKNSKSLVLGLDDNEEISDEFEGVPVKWRHFVDYNEKWIFV--EREREKRYFELTFHKKPRELVTLSYLPYVV  157 (457)
T ss_pred             hhhhhhhccccccceEEecCCcEEEEEEeceEEEEEEEEEecCccccc--ccCCcceEEEEEecCccHHHhHHhHHHHHH
Confidence            999999999999999999999999999999999999998765544322  445678999999999999999999999999


Q ss_pred             hhhhhHHhhhccceecccCCCCCccCccCccceeeecCCCccccccccChhHHHHHHHhh-----------------ccc
Q 037859          166 AGGKAITVKNRQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDL-----------------KKG  228 (504)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~~f~~~~~~~~~k~~i~~~l-----------------~rg  228 (504)
                      .++++|..+++++++|++.++..|..+.+..|++++|.||++|++++|++++|++|++|+                 +||
T Consensus       158 ~~~k~I~~~~r~~kl~t~~~~~~~~~~~~~~W~~v~f~HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRG  237 (457)
T KOG0743|consen  158 SKAKEILEENRELKLYTNSGKTVIYTAKGGEWRSVGFPHPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRG  237 (457)
T ss_pred             HHHHHHHHHHHHHHHhhcCCCcccccccCCcceecCCCCCCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhcc
Confidence            999999999999999999998888877778999999999999999999999999999999                 899


Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCeEEEEecccccccccccccccccccccccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEE  308 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~  308 (504)
                      |||||||||||||++.|||++|+++||+++++.+..+.+|++++..++++|||+||||||.+++.+++.++....     
T Consensus       238 YLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n~dLr~LL~~t~~kSIivIEDIDcs~~l~~~~~~~~~~~-----  312 (457)
T KOG0743|consen  238 YLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLDSDLRHLLLATPNKSILLIEDIDCSFDLRERRKKKKENF-----  312 (457)
T ss_pred             ceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccccCcHHHHHHHHhCCCCcEEEEeecccccccccccccccccc-----
Confidence            999999999999999999999999999999999999999999999999999999999999988777664322110     


Q ss_pred             cCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHH
Q 037859          309 KNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAK  388 (504)
Q Consensus       309 ~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~  388 (504)
                                  ....+.+++|||||++||+||+|+++|||||||||+|+|||||+||||||+||+|++|++++++.|++
T Consensus       313 ------------~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~  380 (457)
T KOG0743|consen  313 ------------EGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLAS  380 (457)
T ss_pred             ------------cCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHH
Confidence                        11356799999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCcCC-cchHHHHhcCccCCCCCHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHhhHHHHHhHHHH
Q 037859          389 NYLDIDS-HELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKEEAIKKTEEE  454 (504)
Q Consensus       389 ~~l~~~~-~~~~~~i~~l~~~~~~s~a~i~~~l~~~~~~~~~~~~l~~li~al~~~~~~~~~~~~e~  454 (504)
                      +||+... |.++++|+++..++.+|||||++.++...  .+++.|++.++++++.++.+......+.
T Consensus       381 nYL~~~~~h~L~~eie~l~~~~~~tPA~V~e~lm~~~--~dad~~lk~Lv~~l~~~~~~~~~~~~~~  445 (457)
T KOG0743|consen  381 NYLGIEEDHRLFDEIERLIEETEVTPAQVAEELMKNK--NDADVALKGLVEALESKKEKRNKDDKEL  445 (457)
T ss_pred             HhcCCCCCcchhHHHHHHhhcCccCHHHHHHHHhhcc--ccHHHHHHHHHHHHHhhhhhhccchhhh
Confidence            9999975 99999999999999999999999999632  3899999999999999988766555444

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

Probab=100.00  E-value=7.2e-41  Score=329.31  Aligned_cols=218  Identities=25%  Similarity=0.329  Sum_probs=166.5

Q ss_pred             HHhhhccceecccCCCCCccCccCccceeeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhc
Q 037859          171 ITVKNRQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      |.+..+....|...++..-+-..=..-..+|+.||..|+.++++|          |+|+|||||||||||.||+|+|++.
T Consensus       140 M~v~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~P----------PKGVLLYGPPGTGKTLLAkAVA~~T  209 (406)
T COG1222         140 MEVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDP----------PKGVLLYGPPGTGKTLLAKAVANQT  209 (406)
T ss_pred             eeeccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCC----------CCceEeeCCCCCcHHHHHHHHHhcc
Confidence            333444444555554332111000234578999999999999999          9999999999999999999999999


Q ss_pred             CCcEEEEecccc-----CChHH-HHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCC
Q 037859          251 NYDVYDLELTTV-----QDNSE-LRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGS  322 (504)
Q Consensus       251 ~~~i~~l~~~~~-----~~~~~-l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  322 (504)
                      +..++.+..+.+     +.+.+ +|.+|.-+  ..||||||||||++.   ++|-.                  ++.+++
T Consensus       210 ~AtFIrvvgSElVqKYiGEGaRlVRelF~lArekaPsIIFiDEIDAIg---~kR~d------------------~~t~gD  268 (406)
T COG1222         210 DATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIG---AKRFD------------------SGTSGD  268 (406)
T ss_pred             CceEEEeccHHHHHHHhccchHHHHHHHHHHhhcCCeEEEEechhhhh---ccccc------------------CCCCch
Confidence            999999988764     33444 56666555  479999999999963   33321                  234567


Q ss_pred             cchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHH
Q 037859          323 KKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVI  402 (504)
Q Consensus       323 ~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i  402 (504)
                      .+-++++-+|||+|||+..  .+++-||||||+++.|||||+||||||++|+||+|+.+.|..|++.|...-.......+
T Consensus       269 rEVQRTmleLL~qlDGFD~--~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~  346 (406)
T COG1222         269 REVQRTMLELLNQLDGFDP--RGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDL  346 (406)
T ss_pred             HHHHHHHHHHHHhccCCCC--CCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCH
Confidence            7789999999999999954  67799999999999999999999999999999999999999999998764322222233


Q ss_pred             hcCccCC-CCCHHHHHHhhC
Q 037859          403 ESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       403 ~~l~~~~-~~s~a~i~~~l~  421 (504)
                      +.++..+ ++|+|||...|.
T Consensus       347 e~la~~~~g~sGAdlkaict  366 (406)
T COG1222         347 ELLARLTEGFSGADLKAICT  366 (406)
T ss_pred             HHHHHhcCCCchHHHHHHHH
Confidence            4445444 999999986543

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3.3e-37  Score=323.23  Aligned_cols=206  Identities=25%  Similarity=0.381  Sum_probs=170.0

Q ss_pred             cccCCCCCccCccCc--------cceeeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCC
Q 037859          181 YSNNPSKNWYGWRST--------KWSHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       181 ~~~~~~~~~~~~~~~--------~w~~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      ....+...|++++|.        .-...|..||..|..+++.+          |+|+|||||||||||++|+|+|++.+.
T Consensus       425 ~ve~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~p----------pkGVLlyGPPGC~KT~lAkalAne~~~  494 (693)
T KOG0730|consen  425 LVEMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISP----------PKGVLLYGPPGCGKTLLAKALANEAGM  494 (693)
T ss_pred             eccCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCC----------CceEEEECCCCcchHHHHHHHhhhhcC
Confidence            344567788888753        11123899999999999999          999999999999999999999999999


Q ss_pred             cEEEEecccc------CChHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcc
Q 037859          253 DVYDLELTTV------QDNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKK  324 (504)
Q Consensus       253 ~i~~l~~~~~------~~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  324 (504)
                      +++.+....+      .++..++.+|..+.  .|||||+||||++.   ++|.                     ++++..
T Consensus       495 nFlsvkgpEL~sk~vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~---~~R~---------------------g~~~~v  550 (693)
T KOG0730|consen  495 NFLSVKGPELFSKYVGESERAIREVFRKARQVAPCIIFFDEIDALA---GSRG---------------------GSSSGV  550 (693)
T ss_pred             CeeeccCHHHHHHhcCchHHHHHHHHHHHhhcCCeEEehhhHHhHh---hccC---------------------CCccch
Confidence            9999977654      35677999998875  68999999999974   3331                     112256


Q ss_pred             hhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhc
Q 037859          325 SKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIES  404 (504)
Q Consensus       325 ~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~  404 (504)
                      ..+++++||++|||+..  ..+++||++||+|+.||+||+||||||..|++++|+.+.|.+|++.++..-...-..+++.
T Consensus       551 ~~RVlsqLLtEmDG~e~--~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~  628 (693)
T KOG0730|consen  551 TDRVLSQLLTEMDGLEA--LKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEE  628 (693)
T ss_pred             HHHHHHHHHHHcccccc--cCcEEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCCCCccccHHH
Confidence            78899999999999954  4569999999999999999999999999999999999999999999987654443455677


Q ss_pred             CccCC-CCCHHHHHHhhCC
Q 037859          405 MPAET-NMTPADVAENLMP  422 (504)
Q Consensus       405 l~~~~-~~s~a~i~~~l~~  422 (504)
                      +++.+ +||+|||.++|..
T Consensus       629 La~~T~g~SGAel~~lCq~  647 (693)
T KOG0730|consen  629 LAQATEGYSGAEIVAVCQE  647 (693)
T ss_pred             HHHHhccCChHHHHHHHHH
Confidence            77766 9999999988764

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

Probab=100.00  E-value=2.2e-35  Score=301.15  Aligned_cols=190  Identities=28%  Similarity=0.374  Sum_probs=157.6

Q ss_pred             ccccccccChhHHHHH---HHhh-------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------C
Q 037859          206 ATFDTLAMETKKKEEI---KKDL-------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------Q  263 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i---~~~l-------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------~  263 (504)
                      .+|++|-+-++.|+++   ++++             |+|+||.||||||||.||+|+|++.+.|+|....+.+      .
T Consensus       301 v~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~VGv  380 (752)
T KOG0734|consen  301 VTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVGV  380 (752)
T ss_pred             cccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhhcc
Confidence            3589998888888655   4444             9999999999999999999999999999999887765      2


Q ss_pred             ChHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          264 DNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       264 ~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                      +..++|.+|..+.  .||||||||||++-   ++|.                     .......+.++++||..|||+..
T Consensus       381 GArRVRdLF~aAk~~APcIIFIDEiDavG---~kR~---------------------~~~~~y~kqTlNQLLvEmDGF~q  436 (752)
T KOG0734|consen  381 GARRVRDLFAAAKARAPCIIFIDEIDAVG---GKRN---------------------PSDQHYAKQTLNQLLVEMDGFKQ  436 (752)
T ss_pred             cHHHHHHHHHHHHhcCCeEEEEechhhhc---ccCC---------------------ccHHHHHHHHHHHHHHHhcCcCc
Confidence            6688999998874  79999999999962   3331                     11122678899999999999954


Q ss_pred             cCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhh
Q 037859          342 ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENL  420 (504)
Q Consensus       342 ~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l  420 (504)
                        .+++|||++||.||.||+||+||||||++|.+|.||...|.+|++.|+..-.+....+..-+++.+ |||+|||++++
T Consensus       437 --NeGiIvigATNfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki~~~~~VD~~iiARGT~GFsGAdLaNlV  514 (752)
T KOG0734|consen  437 --NEGIIVIGATNFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKIPLDEDVDPKIIARGTPGFSGADLANLV  514 (752)
T ss_pred             --CCceEEEeccCChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHHhcCCcccCCCHhHhccCCCCCchHHHHHHH
Confidence              567999999999999999999999999999999999999999999999865554333445566655 99999999765


Q ss_pred             C
Q 037859          421 M  421 (504)
Q Consensus       421 ~  421 (504)
                      -
T Consensus       515 N  515 (752)
T KOG0734|consen  515 N  515 (752)
T ss_pred             H
Confidence            4

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

Probab=100.00  E-value=3.6e-35  Score=303.80  Aligned_cols=208  Identities=24%  Similarity=0.346  Sum_probs=170.4

Q ss_pred             ceecccCCCCCccCccCc-------cc-eeeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHh
Q 037859          178 RKLYSNNPSKNWYGWRST-------KW-SHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~-------~w-~~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +.-|.-.|...|.+++.-       .| ...|..||..|+.++++.          |.|+|||||||||||.||+|+|++
T Consensus       499 REGF~tVPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~----------PsGvLL~GPPGCGKTLlAKAVANE  568 (802)
T KOG0733|consen  499 REGFATVPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDA----------PSGVLLCGPPGCGKTLLAKAVANE  568 (802)
T ss_pred             cccceecCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCC----------CCceEEeCCCCccHHHHHHHHhhh
Confidence            445666678888877542       22 234899999999999988          899999999999999999999999


Q ss_pred             cCCcEEEEecccc------CChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCC
Q 037859          250 LNYDVYDLELTTV------QDNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGG  321 (504)
Q Consensus       250 l~~~i~~l~~~~~------~~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (504)
                      .+.+++.+....+      ++...+|.+|..+  ..||||||||||++++.++                        .++
T Consensus       569 ag~NFisVKGPELlNkYVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~------------------------~~~  624 (802)
T KOG0733|consen  569 AGANFISVKGPELLNKYVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRS------------------------DEG  624 (802)
T ss_pred             ccCceEeecCHHHHHHHhhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccC------------------------CCC
Confidence            9999999876654      3556789999887  4799999999999864322                        223


Q ss_pred             CcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcC-----Cc
Q 037859          322 SKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDID-----SH  396 (504)
Q Consensus       322 ~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~-----~~  396 (504)
                      ...+.+++++||.+|||+..  +.++.||++||+|+.+|||++||||||..+++++|+.++|..|++......     ..
T Consensus       625 s~~s~RvvNqLLtElDGl~~--R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~d  702 (802)
T KOG0733|consen  625 SSVSSRVVNQLLTELDGLEE--RRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSD  702 (802)
T ss_pred             chhHHHHHHHHHHHhccccc--ccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcc
Confidence            55677899999999999955  456999999999999999999999999999999999999999999887632     23


Q ss_pred             chHHHHhcCccCCCCCHHHHHHhhC
Q 037859          397 ELYAVIESMPAETNMTPADVAENLM  421 (504)
Q Consensus       397 ~~~~~i~~l~~~~~~s~a~i~~~l~  421 (504)
                      ..+++|....+..|||+|||+.++.
T Consensus       703 Vdl~eia~~~~c~gftGADLaaLvr  727 (802)
T KOG0733|consen  703 VDLDEIARNTKCEGFTGADLAALVR  727 (802)
T ss_pred             cCHHHHhhcccccCCchhhHHHHHH
Confidence            3456666666667999999997654

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

Probab=100.00  E-value=1.6e-33  Score=291.56  Aligned_cols=186  Identities=25%  Similarity=0.368  Sum_probs=152.6

Q ss_pred             cCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------CChHHHHHHHHhc
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------QDNSELRSLLIDT  275 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------~~~~~l~~l~~~~  275 (504)
                      ..||..|.++++.|          +||+|||||||||||+||+|+|++++.|++.++...+      .+...++.+|.++
T Consensus       209 i~~Pe~~~~lGv~P----------prGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvSGESEkkiRelF~~A  278 (802)
T KOG0733|consen  209 IKHPEVFSSLGVRP----------PRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSGESEKKIRELFDQA  278 (802)
T ss_pred             hcCchhHhhcCCCC----------CCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccCcccHHHHHHHHHHH
Confidence            56777777777777          9999999999999999999999999999999988765      3668899999998


Q ss_pred             c--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc--CCCceEEEE
Q 037859          276 S--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA--SGEERIIVF  351 (504)
Q Consensus       276 ~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~--~~~~~ivI~  351 (504)
                      .  .|||+||||||++.   ++|+                     ..+....++++++||+.||++...  .+..++||+
T Consensus       279 ~~~aPcivFiDeIDAI~---pkRe---------------------~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIg  334 (802)
T KOG0733|consen  279 KSNAPCIVFIDEIDAIT---PKRE---------------------EAQREMERRIVAQLLTSMDELSNEKTKGDPVLVIG  334 (802)
T ss_pred             hccCCeEEEeecccccc---cchh---------------------hHHHHHHHHHHHHHHHhhhcccccccCCCCeEEEe
Confidence            5  69999999999973   3432                     123345678999999999998643  247799999


Q ss_pred             ecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhhC
Q 037859          352 TTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       352 tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      |||+|+.|||||.|+||||..|.+..|+..+|..|++..+..-.+...-++.+++..+ ||.+||+..++.
T Consensus       335 ATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~d~~qlA~lTPGfVGADL~AL~~  405 (802)
T KOG0733|consen  335 ATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDFDFKQLAKLTPGFVGADLMALCR  405 (802)
T ss_pred             cCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCcCHHHHHhcCCCccchhHHHHHH
Confidence            9999999999999999999999999999999999999887643333322334455545 999999987655

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

Probab=99.98  E-value=3.6e-32  Score=287.83  Aligned_cols=205  Identities=25%  Similarity=0.374  Sum_probs=155.4

Q ss_pred             cccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------CC
Q 037859          207 TFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------QD  264 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------~~  264 (504)
                      .++++++-++.|..|++-+                +.|+|||||||||||.+|+|+|.+++..++.+....+      ++
T Consensus       670 ~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMYVGqS  749 (953)
T KOG0736|consen  670 SWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYVGQS  749 (953)
T ss_pred             chhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHHhcch
Confidence            4667777777777777766                6789999999999999999999999999998876653      47


Q ss_pred             hHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc
Q 037859          265 NSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA  342 (504)
Q Consensus       265 ~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~  342 (504)
                      +.++|++|..+.  .|||||+||+|++.+.+|...                      ..++.-.+++|+||.+|||+...
T Consensus       750 E~NVR~VFerAR~A~PCVIFFDELDSlAP~RG~sG----------------------DSGGVMDRVVSQLLAELDgls~~  807 (953)
T KOG0736|consen  750 EENVREVFERARSAAPCVIFFDELDSLAPNRGRSG----------------------DSGGVMDRVVSQLLAELDGLSDS  807 (953)
T ss_pred             HHHHHHHHHHhhccCCeEEEeccccccCccCCCCC----------------------CccccHHHHHHHHHHHhhcccCC
Confidence            789999999885  799999999999876555431                      12334567999999999999865


Q ss_pred             CCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCC-HHHHHHHHHHhcC---cCCcchHHHHhcCccCCCCCHHHHHH
Q 037859          343 SGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCC-FEAFKVLAKNYLD---IDSHELYAVIESMPAETNMTPADVAE  418 (504)
Q Consensus       343 ~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~-~e~~~~i~~~~l~---~~~~~~~~~i~~l~~~~~~s~a~i~~  418 (504)
                      ....++||+|||+||.|||||+||||||+-++++.+. .+.+..+++..-.   .+......+|.+.. ..+||+||+-.
T Consensus       808 ~s~~VFViGATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrkFkLdedVdL~eiAk~c-p~~~TGADlYs  886 (953)
T KOG0736|consen  808 SSQDVFVIGATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRKFKLDEDVDLVEIAKKC-PPNMTGADLYS  886 (953)
T ss_pred             CCCceEEEecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHHHccCCCCcCHHHHHhhC-CcCCchhHHHH
Confidence            6778999999999999999999999999999999984 4555556554332   22222223333222 24888988875


Q ss_pred             hhCCCCCCCCHHHHHHHHHHHHHHhhHH
Q 037859          419 NLMPKCDEDDTETCLKNLIEALKAAKEE  446 (504)
Q Consensus       419 ~l~~~~~~~~~~~~l~~li~al~~~~~~  446 (504)
                      +            |-++++.|++++...
T Consensus       887 L------------CSdA~l~AikR~i~~  902 (953)
T KOG0736|consen  887 L------------CSDAMLAAIKRTIHD  902 (953)
T ss_pred             H------------HHHHHHHHHHHHHHH
Confidence            5            445666666655443

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=99.98  E-value=3.7e-32  Score=255.36  Aligned_cols=206  Identities=27%  Similarity=0.424  Sum_probs=160.4

Q ss_pred             eeeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc-----C-ChHHHHHH
Q 037859          198 SHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV-----Q-DNSELRSL  271 (504)
Q Consensus       198 ~~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~-----~-~~~~l~~l  271 (504)
                      ..+|..||..|+.+++..          |+|+|||||||||||.||+|+|.+..+.++.++.+.+     + +..-++.+
T Consensus       163 IeLPvKHPELF~aLGIaQ----------PKGvlLygppgtGktLlaraVahht~c~firvsgselvqk~igegsrmvrel  232 (404)
T KOG0728|consen  163 IELPVKHPELFEALGIAQ----------PKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQKYIGEGSRMVREL  232 (404)
T ss_pred             HhccccCHHHHHhcCCCC----------CcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHHHHHhhhhHHHHHHH
Confidence            467999999999999998          9999999999999999999999999999999988764     2 33446777


Q ss_pred             HHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEE
Q 037859          272 LIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERII  349 (504)
Q Consensus       272 ~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~iv  349 (504)
                      |.-+.  .|+|||+||||++    |+.+.                 .++.+++.+-++++-.|||++||+..  ..++-+
T Consensus       233 fvmarehapsiifmdeidsi----gs~r~-----------------e~~~ggdsevqrtmlellnqldgfea--tknikv  289 (404)
T KOG0728|consen  233 FVMAREHAPSIIFMDEIDSI----GSSRV-----------------ESGSGGDSEVQRTMLELLNQLDGFEA--TKNIKV  289 (404)
T ss_pred             HHHHHhcCCceEeeeccccc----ccccc-----------------cCCCCccHHHHHHHHHHHHhcccccc--ccceEE
Confidence            76654  7999999999996    33221                 12345667788999999999999965  456889


Q ss_pred             EEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCCCCCHHHHHHhhCCCCCCCCH
Q 037859          350 VFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDDT  429 (504)
Q Consensus       350 I~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~~~s~a~i~~~l~~~~~~~~~  429 (504)
                      ||+||+.+-|||||+||||+|++|+||.|+.++|..|++.+...-..           ..|+.-..|++..-.++..+..
T Consensus       290 imatnridild~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl-----------~rgi~l~kiaekm~gasgaevk  358 (404)
T KOG0728|consen  290 IMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNL-----------TRGINLRKIAEKMPGASGAEVK  358 (404)
T ss_pred             EEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhch-----------hcccCHHHHHHhCCCCccchhh
Confidence            99999999999999999999999999999999999999877532111           1244444444444444444445


Q ss_pred             HHHHHHHHHHHHHhhHHH
Q 037859          430 ETCLKNLIEALKAAKEEA  447 (504)
Q Consensus       430 ~~~l~~li~al~~~~~~~  447 (504)
                      ..|.++-+-|+++++-.-
T Consensus       359 ~vcteagm~alrerrvhv  376 (404)
T KOG0728|consen  359 GVCTEAGMYALRERRVHV  376 (404)
T ss_pred             hhhhhhhHHHHHHhhccc
Confidence            566677777777665443

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=6.6e-32  Score=291.36  Aligned_cols=196  Identities=28%  Similarity=0.374  Sum_probs=162.5

Q ss_pred             CccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------
Q 037859          205 PATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------  262 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------  262 (504)
                      +-+|++|++-++.|++|.+.+                |||+||+||||||||+||+|+|++.|.|++.++.+.+      
T Consensus       307 ~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~~~g  386 (774)
T KOG0731|consen  307 GVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEMFVG  386 (774)
T ss_pred             CCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHHhcc
Confidence            467999999999999988877                9999999999999999999999999999999988874      


Q ss_pred             CChHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          263 QDNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       263 ~~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                      ...++++.+|..+.  .||||||||||++.    ..+..                ....+++.+...++++||..|||+.
T Consensus       387 ~~asrvr~lf~~ar~~aP~iifideida~~----~~r~G----------------~~~~~~~~e~e~tlnQll~emDgf~  446 (774)
T KOG0731|consen  387 VGASRVRDLFPLARKNAPSIIFIDEIDAVG----RKRGG----------------KGTGGGQDEREQTLNQLLVEMDGFE  446 (774)
T ss_pred             cchHHHHHHHHHhhccCCeEEEeccccccc----ccccc----------------cccCCCChHHHHHHHHHHHHhcCCc
Confidence            25788999998875  69999999999963    22100                0123456667889999999999995


Q ss_pred             ccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcc-hHHHHhcCccCC-CCCHHHHHH
Q 037859          341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHE-LYAVIESMPAET-NMTPADVAE  418 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~-~~~~i~~l~~~~-~~s~a~i~~  418 (504)
                      +  +.++|++++||+++.||+||+||||||++|.++.|+...|..|++.|+...... ...++..++..+ |+++|||+.
T Consensus       447 ~--~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n  524 (774)
T KOG0731|consen  447 T--SKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLAN  524 (774)
T ss_pred             C--CCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHh
Confidence            5  467999999999999999999999999999999999999999999998754332 222333455544 999999998


Q ss_pred             hhCC
Q 037859          419 NLMP  422 (504)
Q Consensus       419 ~l~~  422 (504)
                      ++..
T Consensus       525 ~~ne  528 (774)
T KOG0731|consen  525 LCNE  528 (774)
T ss_pred             hhhH
Confidence            7653

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=1.5e-32  Score=258.20  Aligned_cols=222  Identities=22%  Similarity=0.332  Sum_probs=161.4

Q ss_pred             eecccCCCCCccCccCccceeeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          179 KLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~w~~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      ..|...++...+...-..-.++|+.|...+..++++|          |||+|||||||||||+|++|+|++....++.+.
T Consensus       152 vsy~diggld~qkqeireavelplt~~~ly~qigidp----------prgvllygppg~gktml~kava~~t~a~firvv  221 (408)
T KOG0727|consen  152 VSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDP----------PRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVV  221 (408)
T ss_pred             ccccccccchhhHHHHHHHHhccchHHHHHHHhCCCC----------CcceEEeCCCCCcHHHHHHHHhhccchheeeec
Confidence            3455554443332211234467888888888888888          999999999999999999999999999999988


Q ss_pred             cccc-----C-ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHH
Q 037859          259 LTTV-----Q-DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLS  330 (504)
Q Consensus       259 ~~~~-----~-~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls  330 (504)
                      .+.+     + +..-++.+|.-+  ..|+||||||||++..   +|-.                  ...+.+.+-++++-
T Consensus       222 gsefvqkylgegprmvrdvfrlakenapsiifideidaiat---krfd------------------aqtgadrevqril~  280 (408)
T KOG0727|consen  222 GSEFVQKYLGEGPRMVRDVFRLAKENAPSIIFIDEIDAIAT---KRFD------------------AQTGADREVQRILI  280 (408)
T ss_pred             cHHHHHHHhccCcHHHHHHHHHHhccCCcEEEeehhhhHhh---hhcc------------------ccccccHHHHHHHH
Confidence            7764     2 344566666544  5799999999999742   2210                  12345566788999


Q ss_pred             HHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCc-cCC
Q 037859          331 GLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMP-AET  409 (504)
Q Consensus       331 ~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~-~~~  409 (504)
                      .|||.|||+..  ..++-+||+||+.+.|||||+||||+|++|+||+|+..+++-++....+.-......+++.+. ...
T Consensus       281 ellnqmdgfdq--~~nvkvimatnradtldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls~~vdle~~v~rpd  358 (408)
T KOG0727|consen  281 ELLNQMDGFDQ--TTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVDLEDLVARPD  358 (408)
T ss_pred             HHHHhccCcCc--ccceEEEEecCcccccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCCcccCHHHHhcCcc
Confidence            99999999954  456899999999999999999999999999999999999988887765432211111223332 334


Q ss_pred             CCCHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHhhH
Q 037859          410 NMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKE  445 (504)
Q Consensus       410 ~~s~a~i~~~l~~~~~~~~~~~~l~~li~al~~~~~  445 (504)
                      .+|+|+|..+            |.++-+.++++.+.
T Consensus       359 kis~adi~ai------------cqeagm~avr~nry  382 (408)
T KOG0727|consen  359 KISGADINAI------------CQEAGMLAVRENRY  382 (408)
T ss_pred             ccchhhHHHH------------HHHHhHHHHHhcce
Confidence            7888888755            44555555555443

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=1.8e-32  Score=262.24  Aligned_cols=204  Identities=27%  Similarity=0.437  Sum_probs=155.9

Q ss_pred             eeeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc-----CChHHH-HHH
Q 037859          198 SHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV-----QDNSEL-RSL  271 (504)
Q Consensus       198 ~~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~-----~~~~~l-~~l  271 (504)
                      ..+|+.||..++.+++.|          |+|++|||+||||||.||+|+||.....+..+-.+.+     ++..+| |.+
T Consensus       201 vELPLthPE~YeemGikp----------PKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQkylGdGpklvRql  270 (440)
T KOG0726|consen  201 VELPLTHPEYYEEMGIKP----------PKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVREL  270 (440)
T ss_pred             hcCCCCCHHHHHHcCCCC----------CCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHHHhccchHHHHHH
Confidence            468999999999999999          9999999999999999999999999888877755543     444444 556


Q ss_pred             HHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEE
Q 037859          272 LIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERII  349 (504)
Q Consensus       272 ~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~iv  349 (504)
                      |.-+  ..|||+||||||++    |..+-                 .+.+++..+-++++-.|||++||+.+  ++.+-|
T Consensus       271 F~vA~e~apSIvFiDEIdAi----GtKRy-----------------ds~SggerEiQrtmLELLNQldGFds--rgDvKv  327 (440)
T KOG0726|consen  271 FRVAEEHAPSIVFIDEIDAI----GTKRY-----------------DSNSGGEREIQRTMLELLNQLDGFDS--RGDVKV  327 (440)
T ss_pred             HHHHHhcCCceEEeehhhhh----ccccc-----------------cCCCccHHHHHHHHHHHHHhccCccc--cCCeEE
Confidence            6544  47999999999996    33221                 02345667788899999999999965  678999


Q ss_pred             EEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCc-cCCCCCHHHHHHhhCCCCCCCC
Q 037859          350 VFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMP-AETNMTPADVAENLMPKCDEDD  428 (504)
Q Consensus       350 I~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~-~~~~~s~a~i~~~l~~~~~~~~  428 (504)
                      ||+||+.+.|||||+||||+|++|+|+.|+...++.||..+-..-.......++.+. ....+|+|||...         
T Consensus       328 imATnrie~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs~Mtl~~dVnle~li~~kddlSGAdIkAi---------  398 (440)
T KOG0726|consen  328 IMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTSRMTLAEDVNLEELIMTKDDLSGADIKAI---------  398 (440)
T ss_pred             EEecccccccCHhhcCCCccccccccCCCchhhhceeEEEeecccchhccccHHHHhhcccccccccHHHH---------
Confidence            999999999999999999999999999999999999988765432111111123333 3448899998765         


Q ss_pred             HHHHHHHHHHHHHHhhHH
Q 037859          429 TETCLKNLIEALKAAKEE  446 (504)
Q Consensus       429 ~~~~l~~li~al~~~~~~  446 (504)
                         |.++-+-|+++.+..
T Consensus       399 ---ctEaGllAlRerRm~  413 (440)
T KOG0726|consen  399 ---CTEAGLLALRERRMK  413 (440)
T ss_pred             ---HHHHhHHHHHHHHhh
Confidence               445555555555443

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=2.7e-31  Score=250.82  Aligned_cols=222  Identities=27%  Similarity=0.354  Sum_probs=160.5

Q ss_pred             hhhhHHhhhccceecccCCCCCccCccCccceeeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHH
Q 037859          167 GGKAITVKNRQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAM  246 (504)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~ai  246 (504)
                      ..+.|.+..+...-|...++..-+-..-....-+|+.|+..|+.+++.|          |+|+|+|||||||||.+|+|.
T Consensus       156 rVkaMevDekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~p----------PKGvLmYGPPGTGKTlmARAc  225 (424)
T KOG0652|consen  156 RVKAMEVDEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRP----------PKGVLMYGPPGTGKTLMARAC  225 (424)
T ss_pred             hcceeeeccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCC----------CCceEeeCCCCCcHHHHHHHH
Confidence            3444555555566676665432211000122357999999999999999          999999999999999999999


Q ss_pred             HHhcCCcEEEEecccc-----CChHHH-HHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccc
Q 037859          247 ANFLNYDVYDLELTTV-----QDNSEL-RSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKE  318 (504)
Q Consensus       247 A~~l~~~i~~l~~~~~-----~~~~~l-~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (504)
                      |...+..+..+-...+     +++..| +..|.-+  ..|+||||||+|++    |..+-.                 +.
T Consensus       226 AaqT~aTFLKLAgPQLVQMfIGdGAkLVRDAFaLAKEkaP~IIFIDElDAI----GtKRfD-----------------Se  284 (424)
T KOG0652|consen  226 AAQTNATFLKLAGPQLVQMFIGDGAKLVRDAFALAKEKAPTIIFIDELDAI----GTKRFD-----------------SE  284 (424)
T ss_pred             HHhccchHHHhcchHHHhhhhcchHHHHHHHHHHhhccCCeEEEEechhhh----cccccc-----------------cc
Confidence            9998877665543332     344444 5555433  57999999999996    433211                 12


Q ss_pred             cCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcch
Q 037859          319 DGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHEL  398 (504)
Q Consensus       319 ~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~  398 (504)
                      ..++.+-++++-.|||.+||+.+  ...+-||++||+.+-|||||+|.||+|++|+||.|+.+.|.+|++.+...-....
T Consensus       285 k~GDREVQRTMLELLNQLDGFss--~~~vKviAATNRvDiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~  362 (424)
T KOG0652|consen  285 KAGDREVQRTMLELLNQLDGFSS--DDRVKVIAATNRVDILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVSD  362 (424)
T ss_pred             ccccHHHHHHHHHHHHhhcCCCC--ccceEEEeecccccccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCCC
Confidence            34566778899999999999965  4668899999999999999999999999999999999999999998765432222


Q ss_pred             HHHHhcCccCC-CCCHHHHHHhhC
Q 037859          399 YAVIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       399 ~~~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      ...++.++..+ +|.+|+....|.
T Consensus       363 DvNfeELaRsTddFNGAQcKAVcV  386 (424)
T KOG0652|consen  363 DVNFEELARSTDDFNGAQCKAVCV  386 (424)
T ss_pred             CCCHHHHhhcccccCchhheeeeh
Confidence            22234455545 888888875544

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

Probab=99.97  E-value=3e-30  Score=274.39  Aligned_cols=195  Identities=29%  Similarity=0.396  Sum_probs=160.8

Q ss_pred             CCccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc-----
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV-----  262 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~-----  262 (504)
                      ...+|.++++.++.|+++.+-+                |+|+||+||||||||+||+|+|++.+.|++.++.++.     
T Consensus       145 ~~v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemfV  224 (596)
T COG0465         145 VKVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFV  224 (596)
T ss_pred             cCcChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhhc
Confidence            3457999999999998776655                9999999999999999999999999999999998875     


Q ss_pred             -CChHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          263 -QDNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       263 -~~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                       .+.+++|.+|.++.  .||||||||||++    |+.+..                 +-.+++.+...++++||.+|||+
T Consensus       225 GvGAsRVRdLF~qAkk~aP~IIFIDEiDAv----Gr~Rg~-----------------g~GggnderEQTLNQlLvEmDGF  283 (596)
T COG0465         225 GVGASRVRDLFEQAKKNAPCIIFIDEIDAV----GRQRGA-----------------GLGGGNDEREQTLNQLLVEMDGF  283 (596)
T ss_pred             CCCcHHHHHHHHHhhccCCCeEEEehhhhc----ccccCC-----------------CCCCCchHHHHHHHHHHhhhccC
Confidence             36789999999986  5999999999995    433210                 12345566778999999999999


Q ss_pred             cccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHH
Q 037859          340 WSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAE  418 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~  418 (504)
                      .+  +.++|+|++||+++-|||||+||||||++|.++.|+...|++|++-+...........+..++..+ |+++|++.+
T Consensus       284 ~~--~~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl~~iAr~tpGfsGAdL~n  361 (596)
T COG0465         284 GG--NEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSGADLAN  361 (596)
T ss_pred             CC--CCceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCHHHHhhhCCCcccchHhh
Confidence            63  466999999999999999999999999999999999999999999777554333222333355545 999999998


Q ss_pred             hhC
Q 037859          419 NLM  421 (504)
Q Consensus       419 ~l~  421 (504)
                      ++.
T Consensus       362 l~N  364 (596)
T COG0465         362 LLN  364 (596)
T ss_pred             hHH
Confidence            764

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.96  E-value=6.7e-30  Score=271.02  Aligned_cols=220  Identities=21%  Similarity=0.266  Sum_probs=166.7

Q ss_pred             CccccccccChhHHHHHHHhh--------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------CC
Q 037859          205 PATFDTLAMETKKKEEIKKDL--------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------QD  264 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l--------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------~~  264 (504)
                      ..+|++|++-+.+|+.+....              ++|+|||||||||||++|+|+|++++.+++.++++.+      .+
T Consensus       224 ~~~~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~vGes  303 (489)
T CHL00195        224 NEKISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGES  303 (489)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccccChH
Confidence            356999999998888776521              8999999999999999999999999999999998754      24


Q ss_pred             hHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc
Q 037859          265 NSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA  342 (504)
Q Consensus       265 ~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~  342 (504)
                      ...++++|..+  ..||||||||||.++...+                       ..+........++.||..|++.   
T Consensus       304 e~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~-----------------------~~~d~~~~~rvl~~lL~~l~~~---  357 (489)
T CHL00195        304 ESRMRQMIRIAEALSPCILWIDEIDKAFSNSE-----------------------SKGDSGTTNRVLATFITWLSEK---  357 (489)
T ss_pred             HHHHHHHHHHHHhcCCcEEEehhhhhhhcccc-----------------------CCCCchHHHHHHHHHHHHHhcC---
Confidence            56788888754  4799999999999763111                       0112234567888999988853   


Q ss_pred             CCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcc--hHHHHhcCccCC-CCCHHHHHHh
Q 037859          343 SGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHE--LYAVIESMPAET-NMTPADVAEN  419 (504)
Q Consensus       343 ~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~--~~~~i~~l~~~~-~~s~a~i~~~  419 (504)
                       ..+++||+|||+++.||||++||||||.+|+++.|+.++|..|++.|+......  ....+..++..+ |||+|||...
T Consensus       358 -~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~l  436 (489)
T CHL00195        358 -KSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQS  436 (489)
T ss_pred             -CCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHH
Confidence             356899999999999999999999999999999999999999999998653221  122345556555 9999999987


Q ss_pred             hCCCC---CCCCHHHHHHHHHHHHHHhhHHHHHhH
Q 037859          420 LMPKC---DEDDTETCLKNLIEALKAAKEEAIKKT  451 (504)
Q Consensus       420 l~~~~---~~~~~~~~l~~li~al~~~~~~~~~~~  451 (504)
                      +..+.   ..+......++++.+++...+......
T Consensus       437 v~eA~~~A~~~~~~lt~~dl~~a~~~~~Pls~~~~  471 (489)
T CHL00195        437 IIEAMYIAFYEKREFTTDDILLALKQFIPLAQTEK  471 (489)
T ss_pred             HHHHHHHHHHcCCCcCHHHHHHHHHhcCCCcccCH
Confidence            65411   122234567777888877776544333

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.96  E-value=2.7e-30  Score=244.71  Aligned_cols=208  Identities=27%  Similarity=0.408  Sum_probs=160.4

Q ss_pred             ceeeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc-----C-ChHHHHH
Q 037859          197 WSHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV-----Q-DNSELRS  270 (504)
Q Consensus       197 w~~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~-----~-~~~~l~~  270 (504)
                      -.++|+.||..|-.++++|          |+|+|||||||||||.+|+|+|+..+.-++.+-.+.+     + +..-++.
T Consensus       192 vve~pll~perfv~lgidp----------pkgvllygppgtgktl~aravanrtdacfirvigselvqkyvgegarmvre  261 (435)
T KOG0729|consen  192 VVELPLLHPERFVNLGIDP----------PKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYVGEGARMVRE  261 (435)
T ss_pred             HHhccccCHHHHhhcCCCC----------CCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHHHHHhhhhHHHHHH
Confidence            3467999999999999999          9999999999999999999999999998888765553     2 3345677


Q ss_pred             HHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceE
Q 037859          271 LLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERI  348 (504)
Q Consensus       271 l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~i  348 (504)
                      +|.-+.  ..||||+||||++-   |.|-.                  .+.+++.+-++++-.|++++||+  ..++++-
T Consensus       262 lf~martkkaciiffdeidaig---garfd------------------dg~ggdnevqrtmleli~qldgf--dprgnik  318 (435)
T KOG0729|consen  262 LFEMARTKKACIIFFDEIDAIG---GARFD------------------DGAGGDNEVQRTMLELINQLDGF--DPRGNIK  318 (435)
T ss_pred             HHHHhcccceEEEEeecccccc---Ccccc------------------CCCCCcHHHHHHHHHHHHhccCC--CCCCCeE
Confidence            776654  56999999999963   33321                  23456677888999999999999  4567799


Q ss_pred             EEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc---CCcchHHHHhcCccCCCCCHHHHHHhhCCCCC
Q 037859          349 IVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI---DSHELYAVIESMPAETNMTPADVAENLMPKCD  425 (504)
Q Consensus       349 vI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~---~~~~~~~~i~~l~~~~~~s~a~i~~~l~~~~~  425 (504)
                      ++|+||+|+.|||||+||||+|++++|++|+.+.|..|++.+-..   +....++.+..|.  .+-|+|+|..       
T Consensus       319 vlmatnrpdtldpallrpgrldrkvef~lpdlegrt~i~kihaksmsverdir~ellarlc--pnstgaeirs-------  389 (435)
T KOG0729|consen  319 VLMATNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSMSVERDIRFELLARLC--PNSTGAEIRS-------  389 (435)
T ss_pred             EEeecCCCCCcCHhhcCCcccccceeccCCcccccceeEEEeccccccccchhHHHHHhhC--CCCcchHHHH-------
Confidence            999999999999999999999999999999999999998876532   2223344444443  3456666654       


Q ss_pred             CCCHHHHHHHHHHHHHHhhHHHHHhH
Q 037859          426 EDDTETCLKNLIEALKAAKEEAIKKT  451 (504)
Q Consensus       426 ~~~~~~~l~~li~al~~~~~~~~~~~  451 (504)
                           .|.++-+-|++.+++...++.
T Consensus       390 -----vcteagmfairarrk~atekd  410 (435)
T KOG0729|consen  390 -----VCTEAGMFAIRARRKVATEKD  410 (435)
T ss_pred             -----HHHHhhHHHHHHHhhhhhHHH
Confidence                 456666666666655544433

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

Probab=99.96  E-value=2.5e-29  Score=264.11  Aligned_cols=170  Identities=24%  Similarity=0.337  Sum_probs=141.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------CChHHHHHHHHhcc--CCeEEEEeccccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------QDNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQRE  297 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------~~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~  297 (504)
                      +.|+|||||||||||.||.|+|...++.++.+....+      .++..+|.+|..+.  .|||+|+||+|++.+.+|.. 
T Consensus       701 ~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~KyIGaSEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhD-  779 (952)
T KOG0735|consen  701 RTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKYIGASEQNVRDLFERAQSAKPCILFFDEFDSIAPKRGHD-  779 (952)
T ss_pred             ccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHHhcccHHHHHHHHHHhhccCCeEEEeccccccCcccCCC-
Confidence            8899999999999999999999999999999876654      36678999998874  79999999999986533322 


Q ss_pred             ccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecC
Q 037859          298 KKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSY  377 (504)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~  377 (504)
                                             ..+...+++++||.+|||..+.  .++.|+++|.+|+.|||||+||||+|+.|+.+.
T Consensus       780 -----------------------sTGVTDRVVNQlLTelDG~Egl--~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~  834 (952)
T KOG0735|consen  780 -----------------------STGVTDRVVNQLLTELDGAEGL--DGVYILAATSRPDLIDPALLRPGRLDKLVYCPL  834 (952)
T ss_pred             -----------------------CCCchHHHHHHHHHhhcccccc--ceEEEEEecCCccccCHhhcCCCccceeeeCCC
Confidence                                   3345677999999999999764  559999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhhC
Q 037859          378 CCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       378 p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      |+..+|.+|++..-.....+...+++.++..+ |||+||++.++-
T Consensus       835 P~~~eRl~il~~ls~s~~~~~~vdl~~~a~~T~g~tgADlq~ll~  879 (952)
T KOG0735|consen  835 PDEPERLEILQVLSNSLLKDTDVDLECLAQKTDGFTGADLQSLLY  879 (952)
T ss_pred             CCcHHHHHHHHHHhhccCCccccchHHHhhhcCCCchhhHHHHHH
Confidence            99999999998765433333334455666655 999999998765

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.96  E-value=2.2e-29  Score=249.68  Aligned_cols=189  Identities=26%  Similarity=0.349  Sum_probs=147.3

Q ss_pred             ccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc-----CChH
Q 037859          208 FDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV-----QDNS  266 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~-----~~~~  266 (504)
                      ++++++-.+.|+-|.+.+                -+|+|++||||||||+||+|+|.+++..++.++.+.+     +..+
T Consensus       211 W~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltSKwRGeSE  290 (491)
T KOG0738|consen  211 WDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKWRGESE  290 (491)
T ss_pred             hHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhhhhccchH
Confidence            455566666666666555                4899999999999999999999999999999988766     3456


Q ss_pred             HHHHHHHhcc---CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccC
Q 037859          267 ELRSLLIDTS---SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS  343 (504)
Q Consensus       267 ~l~~l~~~~~---~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~  343 (504)
                      +|.+++.+..   .|++|||||||+++.   +|                    ++++.+..+++.-+.||.+|||+....
T Consensus       291 KlvRlLFemARfyAPStIFiDEIDslcs---~R--------------------G~s~EHEaSRRvKsELLvQmDG~~~t~  347 (491)
T KOG0738|consen  291 KLVRLLFEMARFYAPSTIFIDEIDSLCS---QR--------------------GGSSEHEASRRVKSELLVQMDGVQGTL  347 (491)
T ss_pred             HHHHHHHHHHHHhCCceeehhhHHHHHh---cC--------------------CCccchhHHHHHHHHHHHHhhcccccc
Confidence            6777766654   799999999999863   33                    234456778899999999999997543


Q ss_pred             CC-c-eEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhh
Q 037859          344 GE-E-RIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENL  420 (504)
Q Consensus       344 ~~-~-~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l  420 (504)
                      .. . ++|+++||.|+.||+||+|  ||...|++|+|+.+.|+.|++..|..........++.+++.. |||++||...|
T Consensus       348 e~~k~VmVLAATN~PWdiDEAlrR--RlEKRIyIPLP~~~~R~~Li~~~l~~~~~~~~~~~~~lae~~eGySGaDI~nvC  425 (491)
T KOG0738|consen  348 ENSKVVMVLAATNFPWDIDEALRR--RLEKRIYIPLPDAEARSALIKILLRSVELDDPVNLEDLAERSEGYSGADITNVC  425 (491)
T ss_pred             ccceeEEEEeccCCCcchHHHHHH--HHhhheeeeCCCHHHHHHHHHHhhccccCCCCccHHHHHHHhcCCChHHHHHHH
Confidence            22 2 5677899999999999999  999999999999999999999998653322222234445444 99999998665


Q ss_pred             C
Q 037859          421 M  421 (504)
Q Consensus       421 ~  421 (504)
                      .
T Consensus       426 r  426 (491)
T KOG0738|consen  426 R  426 (491)
T ss_pred             H
Confidence            4

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

Probab=99.96  E-value=2e-29  Score=238.32  Aligned_cols=190  Identities=25%  Similarity=0.330  Sum_probs=152.7

Q ss_pred             CccccccccChhHHH---HHHHhh----------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc-----C-Ch
Q 037859          205 PATFDTLAMETKKKE---EIKKDL----------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV-----Q-DN  265 (504)
Q Consensus       205 p~~f~~~~~~~~~k~---~i~~~l----------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~-----~-~~  265 (504)
                      ..+|++|+++++.|+   -|++.+          |+.+|||||||||||++|+|+|++.+.|++.+..+.+     + +.
T Consensus       117 ~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVGdga  196 (368)
T COG1223         117 DITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGDGA  196 (368)
T ss_pred             cccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhhhHH
Confidence            346999999998874   344555          9999999999999999999999999999999988875     2 34


Q ss_pred             HHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccC
Q 037859          266 SELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS  343 (504)
Q Consensus       266 ~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~  343 (504)
                      ..++.++..+.  .|||+||||+|++.  ..++-+                     .-.+.-..+++.||..|||+.  .
T Consensus       197 r~Ihely~rA~~~aPcivFiDE~DAia--LdRryQ---------------------elRGDVsEiVNALLTelDgi~--e  251 (368)
T COG1223         197 RRIHELYERARKAAPCIVFIDELDAIA--LDRRYQ---------------------ELRGDVSEIVNALLTELDGIK--E  251 (368)
T ss_pred             HHHHHHHHHHHhcCCeEEEehhhhhhh--hhhhHH---------------------HhcccHHHHHHHHHHhccCcc--c
Confidence            56888887764  79999999999973  122110                     011223458999999999995  5


Q ss_pred             CCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhhC
Q 037859          344 GEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       344 ~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      +++++.|++||+++.||||+..  ||...|+|.+|+.++|..|++.|...-..+....++.++..+ |+|++||.+.++
T Consensus       252 neGVvtIaaTN~p~~LD~aiRs--RFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~~~~~~~~t~g~SgRdikekvl  328 (368)
T COG1223         252 NEGVVTIAATNRPELLDPAIRS--RFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLAAKTKGMSGRDIKEKVL  328 (368)
T ss_pred             CCceEEEeecCChhhcCHHHHh--hhhheeeeeCCChHHHHHHHHHHHHhCCCccccCHHHHHHHhCCCCchhHHHHHH
Confidence            6789999999999999999999  999999999999999999999998655444444455555555 999999998776

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

Probab=99.96  E-value=4.7e-29  Score=259.29  Aligned_cols=190  Identities=24%  Similarity=0.393  Sum_probs=145.7

Q ss_pred             eeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc-----C-ChHHHHHHH
Q 037859          199 HVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV-----Q-DNSELRSLL  272 (504)
Q Consensus       199 ~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~-----~-~~~~l~~l~  272 (504)
                      ..|+.||..|..+++.+          ++|+|||||||||||++|+++|++++.+++.+..+.+     + +...++.+|
T Consensus       162 ~~pl~~~~~~~~~Gl~~----------pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~k~~ge~~~~lr~lf  231 (398)
T PTZ00454        162 ELPLTCPELYEQIGIDP----------PRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYLGEGPRMVRDVF  231 (398)
T ss_pred             HHHhcCHHHHHhcCCCC----------CceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHHHhcchhHHHHHHHH
Confidence            35777777777777777          8999999999999999999999999999998876543     1 234567777


Q ss_pred             Hhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEE
Q 037859          273 IDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIV  350 (504)
Q Consensus       273 ~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI  350 (504)
                      ..+  ..||||||||||+++.   ++..                  ...+.+......+..||+.+||+..  ..+++||
T Consensus       232 ~~A~~~~P~ILfIDEID~i~~---~r~~------------------~~~~~d~~~~r~l~~LL~~ld~~~~--~~~v~VI  288 (398)
T PTZ00454        232 RLARENAPSIIFIDEVDSIAT---KRFD------------------AQTGADREVQRILLELLNQMDGFDQ--TTNVKVI  288 (398)
T ss_pred             HHHHhcCCeEEEEECHhhhcc---cccc------------------ccCCccHHHHHHHHHHHHHhhccCC--CCCEEEE
Confidence            554  4799999999999752   2210                  0111223455688999999999854  3458999


Q ss_pred             EecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhhC
Q 037859          351 FTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       351 ~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      +|||+++.||||++||||||.+|+|++|+.++|..|++.++.........++..++..+ |+|++||..++.
T Consensus       289 ~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd~~~la~~t~g~sgaDI~~l~~  360 (398)
T PTZ00454        289 MATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQ  360 (398)
T ss_pred             EecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccCHHHHHHHcCCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999987643322122234444444 999999987654

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.95  E-value=1.8e-28  Score=263.88  Aligned_cols=217  Identities=27%  Similarity=0.377  Sum_probs=164.5

Q ss_pred             CCccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc-----
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV-----  262 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~-----  262 (504)
                      ...+|+++++.++.|+++.+.+                ++|+|||||||||||++|+++|++++.+++.++.+.+     
T Consensus        50 ~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~~~  129 (495)
T TIGR01241        50 PKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFV  129 (495)
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHHHh
Confidence            3557999999999887766543                7899999999999999999999999999999987654     


Q ss_pred             -CChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          263 -QDNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       263 -~~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                       .+...++.+|..+  ..||||||||||.++...+..                     ..+.......++++||+.|||+
T Consensus       130 g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~---------------------~~~~~~~~~~~~~~lL~~~d~~  188 (495)
T TIGR01241       130 GVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAG---------------------LGGGNDEREQTLNQLLVEMDGF  188 (495)
T ss_pred             cccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccC---------------------cCCccHHHHHHHHHHHhhhccc
Confidence             2446788888776  468999999999975211110                     0112334457899999999998


Q ss_pred             cccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHH
Q 037859          340 WSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAE  418 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~  418 (504)
                      .+  .++++||+|||+++.|||||+||||||.+|+++.|+.++|.+|++.++..........+..++..+ |+|++||..
T Consensus       189 ~~--~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~~~l~~la~~t~G~sgadl~~  266 (495)
T TIGR01241       189 GT--NTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLAN  266 (495)
T ss_pred             cC--CCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcchhHHHHHHhCCCCCHHHHHH
Confidence            54  456899999999999999999999999999999999999999999998654332223344555544 999999998


Q ss_pred             hhCCC----CCCCCHHHHHHHHHHHHHHh
Q 037859          419 NLMPK----CDEDDTETCLKNLIEALKAA  443 (504)
Q Consensus       419 ~l~~~----~~~~~~~~~l~~li~al~~~  443 (504)
                      ++..+    ........+.+++..+++..
T Consensus       267 l~~eA~~~a~~~~~~~i~~~~l~~a~~~~  295 (495)
T TIGR01241       267 LLNEAALLAARKNKTEITMNDIEEAIDRV  295 (495)
T ss_pred             HHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            76531    11122334556666666654

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.95  E-value=3e-28  Score=273.51  Aligned_cols=190  Identities=24%  Similarity=0.326  Sum_probs=150.1

Q ss_pred             cccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------C
Q 037859          207 TFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------Q  263 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------~  263 (504)
                      .|+++++.+..|+.+.+.+                 ++|+|||||||||||++|+++|++++.+++.++.+.+      .
T Consensus       451 ~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~vGe  530 (733)
T TIGR01243       451 RWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGE  530 (733)
T ss_pred             chhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhcccCc
Confidence            5677777777777666544                 7899999999999999999999999999999987654      2


Q ss_pred             ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          264 DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       264 ~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                      +...++.+|..+  ..||||||||||.+++..+.                       ..........+++||..|||+..
T Consensus       531 se~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~-----------------------~~~~~~~~~~~~~lL~~ldg~~~  587 (733)
T TIGR01243       531 SEKAIREIFRKARQAAPAIIFFDEIDAIAPARGA-----------------------RFDTSVTDRIVNQLLTEMDGIQE  587 (733)
T ss_pred             HHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCC-----------------------CCCccHHHHHHHHHHHHhhcccC
Confidence            456788888776  46899999999998642211                       11223456789999999999854


Q ss_pred             cCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhh
Q 037859          342 ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENL  420 (504)
Q Consensus       342 ~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l  420 (504)
                        ..+++||+|||+++.||||++||||||.+|++++|+.++|..|++.++.........++..++..+ |+|++||..++
T Consensus       588 --~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~l~~la~~t~g~sgadi~~~~  665 (733)
T TIGR01243       588 --LSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVC  665 (733)
T ss_pred             --CCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHcCCCCHHHHHHHH
Confidence              456999999999999999999999999999999999999999999887654332222344555544 99999998765


Q ss_pred             C
Q 037859          421 M  421 (504)
Q Consensus       421 ~  421 (504)
                      .
T Consensus       666 ~  666 (733)
T TIGR01243       666 R  666 (733)
T ss_pred             H
Confidence            3

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.95  E-value=6.1e-28  Score=251.70  Aligned_cols=173  Identities=28%  Similarity=0.339  Sum_probs=132.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC------ChHHHHHHHHhc--cCCeEEEEeccccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ------DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQRE  297 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~------~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~  297 (504)
                      ++|+|||||||||||++|+++|++++.+++.++++.+.      +...++.+|..+  ..||||||||||.++.   .+.
T Consensus       165 p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~---~r~  241 (389)
T PRK03992        165 PKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAA---KRT  241 (389)
T ss_pred             CCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHhhccchHHHHHHHHHHHHhcCCeEEEEechhhhhc---ccc
Confidence            88999999999999999999999999999999887652      234566677655  3689999999999753   221


Q ss_pred             ccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecC
Q 037859          298 KKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSY  377 (504)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~  377 (504)
                      .                  ...++......++..||+.+||+..  ..+++||+|||+++.||+||+||||||..|+|+.
T Consensus       242 ~------------------~~~~~~~~~~~~l~~lL~~ld~~~~--~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~  301 (389)
T PRK03992        242 D------------------SGTSGDREVQRTLMQLLAEMDGFDP--RGNVKIIAATNRIDILDPAILRPGRFDRIIEVPL  301 (389)
T ss_pred             c------------------CCCCccHHHHHHHHHHHHhccccCC--CCCEEEEEecCChhhCCHHHcCCccCceEEEECC
Confidence            0                  0111223345678899999999843  4568999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHhcCcCCcchHHHHhcCccC-CCCCHHHHHHhhC
Q 037859          378 CCFEAFKVLAKNYLDIDSHELYAVIESMPAE-TNMTPADVAENLM  421 (504)
Q Consensus       378 p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~a~i~~~l~  421 (504)
                      |+.++|..|++.++..........+..++.. .|++++||..++.
T Consensus       302 P~~~~R~~Il~~~~~~~~~~~~~~~~~la~~t~g~sgadl~~l~~  346 (389)
T PRK03992        302 PDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICT  346 (389)
T ss_pred             CCHHHHHHHHHHHhccCCCCCcCCHHHHHHHcCCCCHHHHHHHHH
Confidence            9999999999998864322111123344443 4999999986644

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.95  E-value=3.4e-28  Score=278.68  Aligned_cols=167  Identities=17%  Similarity=0.142  Sum_probs=127.7

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC-----------------------------------------
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD-----------------------------------------  264 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~-----------------------------------------  264 (504)
                      |||+||+||||||||.||+|+|++.+.|++.++++.+..                                         
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            899999999999999999999999999999998765421                                         


Q ss_pred             --------hHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhh
Q 037859          265 --------NSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLN  334 (504)
Q Consensus       265 --------~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~  334 (504)
                              ...++.+|..+  .+||||+|||||++..    +                          .....++++||+
T Consensus      1710 ~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~----~--------------------------ds~~ltL~qLLn 1759 (2281)
T CHL00206       1710 MDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNV----N--------------------------ESNYLSLGLLVN 1759 (2281)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCC----C--------------------------ccceehHHHHHH
Confidence                    01256677665  4799999999999731    1                          112346899999


Q ss_pred             hhcCccc-cCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc---CCcchHHHHhcCccCC-
Q 037859          335 FIDGLWS-ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI---DSHELYAVIESMPAET-  409 (504)
Q Consensus       335 ~lDg~~~-~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~---~~~~~~~~i~~l~~~~-  409 (504)
                      .|||... ....+++||+|||+|+.|||||+||||||++|+++.|+..+|+.++...+..   ........+..++..+ 
T Consensus      1760 eLDg~~~~~s~~~VIVIAATNRPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T~ 1839 (2281)
T CHL00206       1760 SLSRDCERCSTRNILVIASTHIPQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSITM 1839 (2281)
T ss_pred             HhccccccCCCCCEEEEEeCCCcccCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhhcCCCCCcccccHHHHHHhCC
Confidence            9998742 2345689999999999999999999999999999999999998887754211   1111111234455545 


Q ss_pred             CCCHHHHHHhhCC
Q 037859          410 NMTPADVAENLMP  422 (504)
Q Consensus       410 ~~s~a~i~~~l~~  422 (504)
                      |+|+|||+.++-.
T Consensus      1840 GfSGADLanLvNE 1852 (2281)
T CHL00206       1840 GSNARDLVALTNE 1852 (2281)
T ss_pred             CCCHHHHHHHHHH
Confidence            9999999987543

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.95  E-value=1.6e-27  Score=252.73  Aligned_cols=186  Identities=26%  Similarity=0.390  Sum_probs=133.3

Q ss_pred             ccccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCc--------EEEEecc
Q 037859          206 ATFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYD--------VYDLELT  260 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~--------i~~l~~~  260 (504)
                      .+|+++++-+.++++|.+.+                 |+|+|||||||||||++|+++|++++.+        .+.+++.
T Consensus       179 v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~  258 (512)
T TIGR03689       179 VTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIK  258 (512)
T ss_pred             CCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEecc
Confidence            45666665555555555543                 8999999999999999999999999765        2333322


Q ss_pred             --cc------CChHHHHHHHHhcc------CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchh
Q 037859          261 --TV------QDNSELRSLLIDTS------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSK  326 (504)
Q Consensus       261 --~~------~~~~~l~~l~~~~~------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  326 (504)
                        .+      .....++.+|..+.      .||||||||||+++...+.                       ........
T Consensus       259 ~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~-----------------------~~s~d~e~  315 (512)
T TIGR03689       259 GPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGS-----------------------GVSSDVET  315 (512)
T ss_pred             chhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCC-----------------------CccchHHH
Confidence              21      12345666665542      5899999999998632111                       01112235


Q ss_pred             hHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCc
Q 037859          327 VTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMP  406 (504)
Q Consensus       327 ~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~  406 (504)
                      ..+++||+.|||+.+.  ++++||+|||+++.|||||+||||||.+|+|++|+.++++.|++.|+...- ++...+   .
T Consensus       316 ~il~~LL~~LDgl~~~--~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~~l-~l~~~l---~  389 (512)
T TIGR03689       316 TVVPQLLSELDGVESL--DNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTDSL-PLDADL---A  389 (512)
T ss_pred             HHHHHHHHHhcccccC--CceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhccC-CchHHH---H
Confidence            6789999999999653  569999999999999999999999999999999999999999999986431 222222   2


Q ss_pred             cCCCCCHHHHHHhh
Q 037859          407 AETNMTPADVAENL  420 (504)
Q Consensus       407 ~~~~~s~a~i~~~l  420 (504)
                      ...|.+.+++..++
T Consensus       390 ~~~g~~~a~~~al~  403 (512)
T TIGR03689       390 EFDGDREATAAALI  403 (512)
T ss_pred             HhcCCCHHHHHHHH
Confidence            23466666665543

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.

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

Probab=99.95  E-value=4e-27  Score=235.96  Aligned_cols=157  Identities=18%  Similarity=0.170  Sum_probs=121.6

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------CChHHHHHHHHhcc-------CCeEEEEecccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------QDNSELRSLLIDTS-------SKSILVIEDIDCSLDL  292 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------~~~~~l~~l~~~~~-------~~~Il~iDeiD~~~~~  292 (504)
                      |+|++||||||||||++|+|+|++++.+++.++...+      +++..++.+|..+.       +||||||||||++++ 
T Consensus       148 PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~~g-  226 (413)
T PLN00020        148 PLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGEPGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAG-  226 (413)
T ss_pred             CeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHhhccCCCeEEEEehhhhcCC-
Confidence            8999999999999999999999999999999998876      24577899997663       699999999999763 


Q ss_pred             cccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc--------c--ccCCCceEEEEecCCCCCCChh
Q 037859          293 TGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL--------W--SASGEERIIVFTTNYVDKLDPA  362 (504)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~--------~--~~~~~~~ivI~tTN~~e~Ld~A  362 (504)
                        ++.                    ........+.+..+||+.+|+.        |  ......++||+|||+++.||||
T Consensus       227 --~r~--------------------~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpA  284 (413)
T PLN00020        227 --RFG--------------------TTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAP  284 (413)
T ss_pred             --CCC--------------------CCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHh
Confidence              221                    1112223455568999998863        3  1224568899999999999999


Q ss_pred             hhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccC
Q 037859          363 LIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAE  408 (504)
Q Consensus       363 LlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~  408 (504)
                      |+||||||..+  ..|+.++|..|++.++...... ..++.+++..
T Consensus       285 LlRpGRfDk~i--~lPd~e~R~eIL~~~~r~~~l~-~~dv~~Lv~~  327 (413)
T PLN00020        285 LIRDGRMEKFY--WAPTREDRIGVVHGIFRDDGVS-REDVVKLVDT  327 (413)
T ss_pred             HcCCCCCCcee--CCCCHHHHHHHHHHHhccCCCC-HHHHHHHHHc
Confidence            99999999865  5899999999999988654332 2444445443

>CHL00176 ftsH cell division protein; Validated

Probab=99.95  E-value=1.9e-27  Score=259.78  Aligned_cols=218  Identities=28%  Similarity=0.363  Sum_probs=164.9

Q ss_pred             CCCccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC---
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ---  263 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~---  263 (504)
                      ....+|+++++.++.|+++.+.+                ++|+|||||||||||++|+++|++++.+++.++++.+.   
T Consensus       177 ~~~~~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~  256 (638)
T CHL00176        177 DTGITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMF  256 (638)
T ss_pred             CCCCCHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHh
Confidence            34567999999998887766554                67999999999999999999999999999999887642   


Q ss_pred             ---ChHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          264 ---DNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       264 ---~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                         ....++.+|..+.  .||||||||||++....+..                     ..+++.....+++.||..|||
T Consensus       257 ~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~---------------------~~~~~~e~~~~L~~LL~~~dg  315 (638)
T CHL00176        257 VGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAG---------------------IGGGNDEREQTLNQLLTEMDG  315 (638)
T ss_pred             hhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCC---------------------CCCCcHHHHHHHHHHHhhhcc
Confidence               3456788887764  68999999999975321110                     112334456789999999999


Q ss_pred             ccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHH
Q 037859          339 LWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVA  417 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~  417 (504)
                      +..  ..+++||+|||+++.|||||+||||||.+|.++.|+.++|..|++.++..........+..++..+ |+|++||.
T Consensus       316 ~~~--~~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~~d~~l~~lA~~t~G~sgaDL~  393 (638)
T CHL00176        316 FKG--NKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLA  393 (638)
T ss_pred             ccC--CCCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccchhHHHHHHHhcCCCCCHHHHH
Confidence            854  456899999999999999999999999999999999999999999998764333333455666655 99999999


Q ss_pred             HhhCCC----CCCCCHHHHHHHHHHHHHHh
Q 037859          418 ENLMPK----CDEDDTETCLKNLIEALKAA  443 (504)
Q Consensus       418 ~~l~~~----~~~~~~~~~l~~li~al~~~  443 (504)
                      .++...    ........+.+++..++.+.
T Consensus       394 ~lvneAal~a~r~~~~~It~~dl~~Ai~rv  423 (638)
T CHL00176        394 NLLNEAAILTARRKKATITMKEIDTAIDRV  423 (638)
T ss_pred             HHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Confidence            776531    11222233445555555443

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

Probab=99.95  E-value=8.9e-28  Score=251.38  Aligned_cols=189  Identities=28%  Similarity=0.403  Sum_probs=143.5

Q ss_pred             eeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC------ChHHHHHHH
Q 037859          199 HVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ------DNSELRSLL  272 (504)
Q Consensus       199 ~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~------~~~~l~~l~  272 (504)
                      ..|+.||..|+.+.+.+          ++|+|||||||||||++|+++|++++.+++.+..+.+.      +...++.+|
T Consensus       200 ~lpl~~p~~~~~~gi~~----------p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~k~~Ge~~~~vr~lF  269 (438)
T PTZ00361        200 ELPLTHPELYDDIGIKP----------PKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLGDGPKLVRELF  269 (438)
T ss_pred             HhhhhCHHHHHhcCCCC----------CcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhhhhcchHHHHHHHHH
Confidence            45777777777777776          89999999999999999999999999999988776652      223466676


Q ss_pred             Hhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEE
Q 037859          273 IDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIV  350 (504)
Q Consensus       273 ~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI  350 (504)
                      ..+  ..||||||||||.++.   ++..                  ...++......++..||+.+||+..  ..++.||
T Consensus       270 ~~A~~~~P~ILfIDEID~l~~---kR~~------------------~~sgg~~e~qr~ll~LL~~Ldg~~~--~~~V~VI  326 (438)
T PTZ00361        270 RVAEENAPSIVFIDEIDAIGT---KRYD------------------ATSGGEKEIQRTMLELLNQLDGFDS--RGDVKVI  326 (438)
T ss_pred             HHHHhCCCcEEeHHHHHHHhc---cCCC------------------CCCcccHHHHHHHHHHHHHHhhhcc--cCCeEEE
Confidence            554  4789999999999752   2210                  0122333455678899999999853  4568999


Q ss_pred             EecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCcc-CCCCCHHHHHHhh
Q 037859          351 FTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPA-ETNMTPADVAENL  420 (504)
Q Consensus       351 ~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~a~i~~~l  420 (504)
                      +|||+++.||||++||||||.+|+|+.|+.++|..|++.++..........+..++. ..++|+|||..+|
T Consensus       327 ~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvdl~~la~~t~g~sgAdI~~i~  397 (438)
T PTZ00361        327 MATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAIC  397 (438)
T ss_pred             EecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCcCHHHHHHhcCCCCHHHHHHHH
Confidence            999999999999999999999999999999999999999875432211112333343 3499999998653

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=99.94  E-value=3e-27  Score=228.69  Aligned_cols=216  Identities=23%  Similarity=0.342  Sum_probs=162.8

Q ss_pred             ceeeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC------ChHHHHH
Q 037859          197 WSHVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ------DNSELRS  270 (504)
Q Consensus       197 w~~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~------~~~~l~~  270 (504)
                      -..+|+.+|..|-.+.+.+          |+|+|||||||||||.+|+++|..++.+++.+..+.+.      ...-+|.
T Consensus       147 ~ielpl~np~lf~rvgIk~----------Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~kyiGEsaRlIRe  216 (388)
T KOG0651|consen  147 VIELPLTNPELFLRVGIKP----------PKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKYIGESARLIRD  216 (388)
T ss_pred             heEeeccCchhccccCCCC----------CceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhhcccHHHHHHH
Confidence            4578999999999999999          99999999999999999999999999999998887763      2234567


Q ss_pred             HHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceE
Q 037859          271 LLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERI  348 (504)
Q Consensus       271 l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~i  348 (504)
                      .|..+.  .||||||||||++.   |++..                  .+...+..-+.||-.|||.|||+...  +.+-
T Consensus       217 mf~yA~~~~pciifmdeiDAig---GRr~s------------------e~Ts~dreiqrTLMeLlnqmdgfd~l--~rVk  273 (388)
T KOG0651|consen  217 MFRYAREVIPCIIFMDEIDAIG---GRRFS------------------EGTSSDREIQRTLMELLNQMDGFDTL--HRVK  273 (388)
T ss_pred             HHHHHhhhCceEEeehhhhhhc---cEEec------------------cccchhHHHHHHHHHHHHhhccchhc--cccc
Confidence            776665  68999999999963   44421                  12234456678999999999999654  4488


Q ss_pred             EEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc-CC--cchHHHHhcCccCCCCCHHHHHHhhCCC--
Q 037859          349 IVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI-DS--HELYAVIESMPAETNMTPADVAENLMPK--  423 (504)
Q Consensus       349 vI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~-~~--~~~~~~i~~l~~~~~~s~a~i~~~l~~~--  423 (504)
                      +|||||+++.|||||+||||+|+.+++|.|+...|..|++.+-.. +.  .-.++.+-++.  .++.++|+...+...  
T Consensus       274 ~ImatNrpdtLdpaLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~~--d~f~gad~rn~~tEag~  351 (388)
T KOG0651|consen  274 TIMATNRPDTLDPALLRPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKLV--DGFNGADLRNVCTEAGM  351 (388)
T ss_pred             EEEecCCccccchhhcCCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHHH--hccChHHHhhhcccccc
Confidence            999999999999999999999999999999999998887755422 11  22244444443  478889987766542  


Q ss_pred             --CCCCCHHHHHHHHHHHHHHhhHHH
Q 037859          424 --CDEDDTETCLKNLIEALKAAKEEA  447 (504)
Q Consensus       424 --~~~~~~~~~l~~li~al~~~~~~~  447 (504)
                        ...+......++++.++++....+
T Consensus       352 Fa~~~~~~~vl~Ed~~k~vrk~~~~k  377 (388)
T KOG0651|consen  352 FAIPEERDEVLHEDFMKLVRKQADAK  377 (388)
T ss_pred             cccchhhHHHhHHHHHHHHHHHHHHH
Confidence              122233445566666666555443

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.94  E-value=2.2e-27  Score=228.16  Aligned_cols=182  Identities=26%  Similarity=0.358  Sum_probs=149.2

Q ss_pred             cccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc-----CChHH
Q 037859          209 DTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV-----QDNSE  267 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~-----~~~~~  267 (504)
                      ++|++-+..|+.+.+.+                -||+|||||||||||.||+|+|.+.+-.++.++.+++     +..+.
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLvSKWmGESEk  212 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEK  212 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHHHHHhccHHH
Confidence            34566667777777665                4899999999999999999999999999999988765     33344


Q ss_pred             -HHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCC
Q 037859          268 -LRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG  344 (504)
Q Consensus       268 -l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~  344 (504)
                       ++++|.-+  ..|+||||||||.++   |+|.                     .+.+..++++-..||.+|.|+-. ..
T Consensus       213 LVknLFemARe~kPSIIFiDEiDslc---g~r~---------------------enEseasRRIKTEfLVQMqGVG~-d~  267 (439)
T KOG0739|consen  213 LVKNLFEMARENKPSIIFIDEIDSLC---GSRS---------------------ENESEASRRIKTEFLVQMQGVGN-DN  267 (439)
T ss_pred             HHHHHHHHHHhcCCcEEEeehhhhhc---cCCC---------------------CCchHHHHHHHHHHHHhhhcccc-CC
Confidence             45666554  479999999999875   4442                     23345567888999999999853 45


Q ss_pred             CceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHH-HHhcCccCC-CCCHHHHH
Q 037859          345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYA-VIESMPAET-NMTPADVA  417 (504)
Q Consensus       345 ~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~-~i~~l~~~~-~~s~a~i~  417 (504)
                      ++++|+++||-|+.||.|+.|  ||+..|++|+|...+|..+++.+++...|.+.. ++..|+..+ |||++||.
T Consensus       268 ~gvLVLgATNiPw~LDsAIRR--RFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeGySGsDis  340 (439)
T KOG0739|consen  268 DGVLVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEGYSGSDIS  340 (439)
T ss_pred             CceEEEecCCCchhHHHHHHH--HhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCCCCcCceE
Confidence            679999999999999999999  999999999999999999999999998887654 577777766 99999986

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

Probab=99.94  E-value=5.8e-27  Score=252.51  Aligned_cols=170  Identities=28%  Similarity=0.393  Sum_probs=137.9

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------CChHHHHHHHHhcc--CCeEEEEeccccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------QDNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQRE  297 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------~~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~  297 (504)
                      ++|+|||||||||||++|+|+|++++.+++.++.+.+      .+...++.+|..+.  .||||||||||+++...+.  
T Consensus       276 ~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~sk~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~--  353 (494)
T COG0464         276 PKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGP--  353 (494)
T ss_pred             CCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhccccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCC--
Confidence            6799999999999999999999999999999988764      25577899998875  7999999999998642221  


Q ss_pred             ccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecC
Q 037859          298 KKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSY  377 (504)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~  377 (504)
                                            +........+++||..|||+..  ..++++|+|||+++.||||++||||||..|+++.
T Consensus       354 ----------------------~~~~~~~r~~~~lL~~~d~~e~--~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~  409 (494)
T COG0464         354 ----------------------SEDGSGRRVVGQLLTELDGIEK--AEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPL  409 (494)
T ss_pred             ----------------------CCchHHHHHHHHHHHHhcCCCc--cCceEEEecCCCccccCHhhcccCccceEeecCC
Confidence                                  1122236799999999999955  4558999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHhcCcCCcch--HHHHhcCcc-CCCCCHHHHHHhhC
Q 037859          378 CCFEAFKVLAKNYLDIDSHEL--YAVIESMPA-ETNMTPADVAENLM  421 (504)
Q Consensus       378 p~~e~~~~i~~~~l~~~~~~~--~~~i~~l~~-~~~~s~a~i~~~l~  421 (504)
                      |+.++|..|++.++......+  ......+++ ..++|++||...+.
T Consensus       410 pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~  456 (494)
T COG0464         410 PDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVR  456 (494)
T ss_pred             CCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHH
Confidence            999999999999997443321  122344444 34899999987654

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.94  E-value=1.6e-26  Score=229.41  Aligned_cols=188  Identities=24%  Similarity=0.352  Sum_probs=148.1

Q ss_pred             eeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC-----hHHHH-HHH
Q 037859          199 HVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD-----NSELR-SLL  272 (504)
Q Consensus       199 ~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~-----~~~l~-~l~  272 (504)
                      -+|+.+|..|....+-..         ++|+|||||||||||++|+|+|.+.+.+++.+..+.+.+     ...+. .+|
T Consensus       109 ilPlr~pelF~~g~Ll~p---------~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~KWfgE~eKlv~AvF  179 (386)
T KOG0737|consen  109 ILPLRRPELFAKGKLLRP---------PKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSKWFGEAQKLVKAVF  179 (386)
T ss_pred             hhcccchhhhcccccccC---------CccceecCCCCchHHHHHHHHHHHcCCCcceeeccccchhhHHHHHHHHHHHH
Confidence            357777777764432221         799999999999999999999999999999999987643     23343 344


Q ss_pred             Hhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEE
Q 037859          273 IDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIV  350 (504)
Q Consensus       273 ~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI  350 (504)
                      .-+.  +||||||||+|.++   +.|.                     .+.+......-++|+...||+.+..+..++|+
T Consensus       180 slAsKl~P~iIFIDEvds~L---~~R~---------------------s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVl  235 (386)
T KOG0737|consen  180 SLASKLQPSIIFIDEVDSFL---GQRR---------------------STDHEATAMMKNEFMALWDGLSSKDSERVLVL  235 (386)
T ss_pred             hhhhhcCcceeehhhHHHHH---hhcc---------------------cchHHHHHHHHHHHHHHhccccCCCCceEEEE
Confidence            3333  79999999999986   3331                     22344556677899999999988766668888


Q ss_pred             EecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhhC
Q 037859          351 FTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       351 ~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      +|||+|..||.|++|  ||...++++.|+.++|..|++-+|..+..+..-++.+++..+ |||+.||.++|.
T Consensus       236 gATNRP~DlDeAiiR--R~p~rf~V~lP~~~qR~kILkviLk~e~~e~~vD~~~iA~~t~GySGSDLkelC~  305 (386)
T KOG0737|consen  236 GATNRPFDLDEAIIR--RLPRRFHVGLPDAEQRRKILKVILKKEKLEDDVDLDEIAQMTEGYSGSDLKELCR  305 (386)
T ss_pred             eCCCCCccHHHHHHH--hCcceeeeCCCchhhHHHHHHHHhcccccCcccCHHHHHHhcCCCcHHHHHHHHH
Confidence            999999999999999  999999999999999999999999876554333455566655 999999998876

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.93  E-value=4.4e-26  Score=251.29  Aligned_cols=195  Identities=27%  Similarity=0.360  Sum_probs=151.7

Q ss_pred             CccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------
Q 037859          205 PATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------  262 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------  262 (504)
                      ..+|+++.+....++++.+.+                ++|+||+||||||||++++++|++++.+++.++++.+      
T Consensus       148 ~~~~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~g  227 (644)
T PRK10733        148 KTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVG  227 (644)
T ss_pred             hCcHHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhhc
Confidence            456888888777776655433                7899999999999999999999999999999988653      


Q ss_pred             CChHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          263 QDNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       263 ~~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                      .....++.+|..+.  .||||||||||.+..   ++..                  +..++......++++||..|||+.
T Consensus       228 ~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~---~r~~------------------~~~g~~~~~~~~ln~lL~~mdg~~  286 (644)
T PRK10733        228 VGASRVRDMFEQAKKAAPCIIFIDEIDAVGR---QRGA------------------GLGGGHDEREQTLNQMLVEMDGFE  286 (644)
T ss_pred             ccHHHHHHHHHHHHhcCCcEEEehhHhhhhh---ccCC------------------CCCCCchHHHHHHHHHHHhhhccc
Confidence            24467788887653  789999999999742   1110                  011233445678999999999995


Q ss_pred             ccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHh
Q 037859          341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAEN  419 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~  419 (504)
                      +  ..++++|+|||+++.||||++||||||++|++++|+.++|.+|++.|+..........+..++..+ |||+|||..+
T Consensus       287 ~--~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~~d~~~la~~t~G~sgadl~~l  364 (644)
T PRK10733        287 G--NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANL  364 (644)
T ss_pred             C--CCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCCcCCHHHHHhhCCCCCHHHHHHH
Confidence            5  456999999999999999999999999999999999999999999998654322222233455544 9999999988


Q ss_pred             hCC
Q 037859          420 LMP  422 (504)
Q Consensus       420 l~~  422 (504)
                      +..
T Consensus       365 ~~e  367 (644)
T PRK10733        365 VNE  367 (644)
T ss_pred             HHH
Confidence            654

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.92  E-value=3.3e-25  Score=229.84  Aligned_cols=173  Identities=28%  Similarity=0.352  Sum_probs=128.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC------ChHHHHHHHHhc--cCCeEEEEeccccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ------DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQRE  297 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~------~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~  297 (504)
                      ++|+|||||||||||++|+++|++++.+++.+....+.      ....++.+|..+  ..|+||||||+|.++.   .+.
T Consensus       156 p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~---~~~  232 (364)
T TIGR01242       156 PKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAA---KRT  232 (364)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHHhhhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhcc---ccc
Confidence            78999999999999999999999999999888655431      123355566544  4689999999999752   111


Q ss_pred             ccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecC
Q 037859          298 KKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSY  377 (504)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~  377 (504)
                      .                  ...++.......+..+|+.+|++..  .+++.||+|||+++.+|++++||||||..|+|+.
T Consensus       233 ~------------------~~~~~~~~~~~~l~~ll~~ld~~~~--~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~  292 (364)
T TIGR01242       233 D------------------SGTSGDREVQRTLMQLLAELDGFDP--RGNVKVIAATNRPDILDPALLRPGRFDRIIEVPL  292 (364)
T ss_pred             c------------------CCCCccHHHHHHHHHHHHHhhCCCC--CCCEEEEEecCChhhCChhhcCcccCceEEEeCC
Confidence            0                  0111223345678899999998743  3568999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHhcCcCCcchHHHHhcCccC-CCCCHHHHHHhhC
Q 037859          378 CCFEAFKVLAKNYLDIDSHELYAVIESMPAE-TNMTPADVAENLM  421 (504)
Q Consensus       378 p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~a~i~~~l~  421 (504)
                      |+.++|..|++.++..........+..++.. .|++++||..++.
T Consensus       293 P~~~~r~~Il~~~~~~~~l~~~~~~~~la~~t~g~sg~dl~~l~~  337 (364)
T TIGR01242       293 PDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICT  337 (364)
T ss_pred             cCHHHHHHHHHHHHhcCCCCccCCHHHHHHHcCCCCHHHHHHHHH
Confidence            9999999999998754322111123334443 4899999986543

Many proteins may score above the trusted cutoff because an internal

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

Probab=99.92  E-value=3.9e-26  Score=233.52  Aligned_cols=191  Identities=24%  Similarity=0.342  Sum_probs=140.0

Q ss_pred             ccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCc-EEEEecccc------CChHHHHHHHHhc-----
Q 037859          208 FDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYD-VYDLELTTV------QDNSELRSLLIDT-----  275 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~-i~~l~~~~~------~~~~~l~~l~~~~-----  275 (504)
                      |..=+++|+..+++-----+|+|||||||||||.+|+.|..-|+.. --.++...+      .+++++|++|..+     
T Consensus       238 FAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPeIL~KYVGeSE~NvR~LFaDAEeE~r  317 (744)
T KOG0741|consen  238 FASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPEILNKYVGESEENVRKLFADAEEEQR  317 (744)
T ss_pred             HHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcHHHHHHhhcccHHHHHHHHHhHHHHHH
Confidence            4444555544333222116899999999999999999999998753 222333322      4678899999876     


Q ss_pred             -----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEE
Q 037859          276 -----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIV  350 (504)
Q Consensus       276 -----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI  350 (504)
                           +.-.||++||||++|..+|+.                      .++.+....++++||.-|||+...  .+++||
T Consensus       318 ~~g~~SgLHIIIFDEiDAICKqRGS~----------------------~g~TGVhD~VVNQLLsKmDGVeqL--NNILVI  373 (744)
T KOG0741|consen  318 RLGANSGLHIIIFDEIDAICKQRGSM----------------------AGSTGVHDTVVNQLLSKMDGVEQL--NNILVI  373 (744)
T ss_pred             hhCccCCceEEEehhhHHHHHhcCCC----------------------CCCCCccHHHHHHHHHhcccHHhh--hcEEEE
Confidence                 234799999999998544433                      334556677999999999999765  559999


Q ss_pred             EecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcC-Cc---chHHHHhcCccCC-CCCHHHHHHhhCC
Q 037859          351 FTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDID-SH---ELYAVIESMPAET-NMTPADVAENLMP  422 (504)
Q Consensus       351 ~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~-~~---~~~~~i~~l~~~~-~~s~a~i~~~l~~  422 (504)
                      +.||+++.||+||+||||+..++++++|+.+.|.+|++.+-..- .+   ....++.+++..+ +||+|+|.+++..
T Consensus       374 GMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~rMre~~~l~~dVdl~elA~lTKNfSGAEleglVks  450 (744)
T KOG0741|consen  374 GMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKIHTKRMRENNKLSADVDLKELAALTKNFSGAELEGLVKS  450 (744)
T ss_pred             eccCchhhHHHHhcCCCceEEEEEEeCCCccCceEEEEhhhhhhhhcCCCCCCcCHHHHHHHhcCCchhHHHHHHHH
Confidence            99999999999999999999999999999999999987665321 11   1112234444444 9999999987653

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.91  E-value=1.2e-24  Score=228.93  Aligned_cols=186  Identities=28%  Similarity=0.421  Sum_probs=155.5

Q ss_pred             eeecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------CChHHHHHHH
Q 037859          199 HVFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------QDNSELRSLL  272 (504)
Q Consensus       199 ~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------~~~~~l~~l~  272 (504)
                      ..|+.||..|..+...+          |+|+|+|||||||||.+++|+|++.+..++.++...+      .+.+.||+.|
T Consensus       201 ~~pl~~~~~~~s~g~~~----------prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~~gEte~~LR~~f  270 (693)
T KOG0730|consen  201 ELPLRHPALFKSIGIKP----------PRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKFPGETESNLRKAF  270 (693)
T ss_pred             HhhhcchhhhhhcCCCC----------CCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhcccchHHHHHHHH
Confidence            46888888888888888          9999999999999999999999999999999998865      4678899999


Q ss_pred             Hhcc--C-CeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEE
Q 037859          273 IDTS--S-KSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERII  349 (504)
Q Consensus       273 ~~~~--~-~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~iv  349 (504)
                      ..+.  + |+||||||+|.+++   +|..                      ......++.++|+..+||..  ....+|+
T Consensus       271 ~~a~k~~~psii~IdEld~l~p---~r~~----------------------~~~~e~Rv~sqlltL~dg~~--~~~~viv  323 (693)
T KOG0730|consen  271 AEALKFQVPSIIFIDELDALCP---KREG----------------------ADDVESRVVSQLLTLLDGLK--PDAKVIV  323 (693)
T ss_pred             HHHhccCCCeeEeHHhHhhhCC---cccc----------------------cchHHHHHHHHHHHHHhhCc--CcCcEEE
Confidence            8874  4 99999999999863   3320                      11135678999999999994  3567999


Q ss_pred             EEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhhCC
Q 037859          350 VFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENLMP  422 (504)
Q Consensus       350 I~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l~~  422 (504)
                      |+|||+++.||||+.| ||||..+.++.|+..+|..|++.+.....+....++..++..+ ||++||+..++..
T Consensus       324 l~atnrp~sld~alRR-gRfd~ev~IgiP~~~~RldIl~~l~k~~~~~~~~~l~~iA~~thGyvGaDL~~l~~e  396 (693)
T KOG0730|consen  324 LAATNRPDSLDPALRR-GRFDREVEIGIPGSDGRLDILRVLTKKMNLLSDVDLEDIAVSTHGYVGADLAALCRE  396 (693)
T ss_pred             EEecCCccccChhhhc-CCCcceeeecCCCchhHHHHHHHHHHhcCCcchhhHHHHHHHccchhHHHHHHHHHH
Confidence            9999999999999999 9999999999999999999999998765554334555556544 9999999987754

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=99.90  E-value=3.8e-24  Score=236.92  Aligned_cols=170  Identities=25%  Similarity=0.318  Sum_probs=132.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC-----cEEEEec-----ccc-CChHHHHHHHHhcc--CCeEEEEecccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY-----DVYDLEL-----TTV-QDNSELRSLLIDTS--SKSILVIEDIDCSLDL  292 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~-----~i~~l~~-----~~~-~~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~  292 (504)
                      |||+|||||||||||++|+|+|..+..     .+|.-+.     .++ ..+.+++-+|.++.  .|+|||+||||-+.+.
T Consensus       299 PrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD~lskwvgEaERqlrllFeeA~k~qPSIIffdeIdGlapv  378 (1080)
T KOG0732|consen  299 PRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGADCLSKWVGEAERQLRLLFEEAQKTQPSIIFFDEIDGLAPV  378 (1080)
T ss_pred             CcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCchhhccccCcHHHHHHHHHHHHhccCceEEecccccccccc
Confidence            999999999999999999999998732     2222111     123 35577888998874  7999999999987543


Q ss_pred             cccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeE
Q 037859          293 TGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKH  372 (504)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~  372 (504)
                      ..+.                        .......+++.||..|||+.+  .+.+++|+|||+++.+||||+||||||+.
T Consensus       379 rSsk------------------------qEqih~SIvSTLLaLmdGlds--RgqVvvigATnRpda~dpaLRRPgrfdre  432 (1080)
T KOG0732|consen  379 RSSK------------------------QEQIHASIVSTLLALMDGLDS--RGQVVVIGATNRPDAIDPALRRPGRFDRE  432 (1080)
T ss_pred             ccch------------------------HHHhhhhHHHHHHHhccCCCC--CCceEEEcccCCccccchhhcCCccccee
Confidence            3221                        223355689999999999955  67799999999999999999999999999


Q ss_pred             EEecCCCHHHHHHHHHHhcCcCCcchHH-HHhcCccCC-CCCHHHHHHhhC
Q 037859          373 IEMSYCCFEAFKVLAKNYLDIDSHELYA-VIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       373 I~~~~p~~e~~~~i~~~~l~~~~~~~~~-~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      ++|++|+.++|..|+..+-.....+... ....+++.+ |+-+|||..+|.
T Consensus       433 f~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaLCT  483 (1080)
T KOG0732|consen  433 FYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKALCT  483 (1080)
T ss_pred             EeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHHHH
Confidence            9999999999999999887665554433 345556555 999999876544

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.88  E-value=7.1e-23  Score=210.17  Aligned_cols=185  Identities=25%  Similarity=0.329  Sum_probs=149.0

Q ss_pred             ecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC-----Ch-HHHHHHHHh
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-----DN-SELRSLLID  274 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~-----~~-~~l~~l~~~  274 (504)
                      |+..|..|..+.-.           .+|+||.||||||||+|++|||.+.+..++.+..+++.     .. .-++.+|.-
T Consensus       172 p~lr~d~F~glr~p-----------~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLtsK~~Ge~eK~vralf~v  240 (428)
T KOG0740|consen  172 PLLRPDLFLGLREP-----------VRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTSKYVGESEKLVRALFKV  240 (428)
T ss_pred             cccchHhhhccccc-----------cchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhhhhccChHHHHHHHHHHH
Confidence            55555555544332           58999999999999999999999999999999888763     22 345555544


Q ss_pred             c--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEe
Q 037859          275 T--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFT  352 (504)
Q Consensus       275 ~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~t  352 (504)
                      +  .+|+|+||||||.+|..   |                     .+.....+.....++|..+||..+...+.++||+|
T Consensus       241 Ar~~qPsvifidEidslls~---R---------------------s~~e~e~srr~ktefLiq~~~~~s~~~drvlviga  296 (428)
T KOG0740|consen  241 ARSLQPSVIFIDEIDSLLSK---R---------------------SDNEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGA  296 (428)
T ss_pred             HHhcCCeEEEechhHHHHhh---c---------------------CCcccccchhhhhHHHhhhccccCCCCCeEEEEec
Confidence            4  48999999999998742   2                     12234446678899999999998877778889999


Q ss_pred             cCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchH-HHHhcCccCC-CCCHHHHHHhhCC
Q 037859          353 TNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELY-AVIESMPAET-NMTPADVAENLMP  422 (504)
Q Consensus       353 TN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~-~~i~~l~~~~-~~s~a~i~~~l~~  422 (504)
                      ||.|+.+|.|++|  ||...+++|.|+.+.|..++++++....+.+. .+++.+++.+ |||+.||.++|..
T Consensus       297 TN~P~e~Dea~~R--rf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Tegysgsdi~~l~ke  366 (428)
T KOG0740|consen  297 TNRPWELDEAARR--RFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEGYSGSDITALCKE  366 (428)
T ss_pred             CCCchHHHHHHHH--HhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCcccccHHHHHHH
Confidence            9999999999999  99999999999999999999999987766554 4677777766 9999999988764

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.88  E-value=1.9e-22  Score=226.74  Aligned_cols=189  Identities=29%  Similarity=0.382  Sum_probs=146.0

Q ss_pred             ccccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC-----
Q 037859          206 ATFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-----  263 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~-----  263 (504)
                      .+|+++++.+..++.|.+.+                 ++|+|||||||||||++++++|++++.+++.++...+.     
T Consensus       175 ~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~~g  254 (733)
T TIGR01243       175 VTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYG  254 (733)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhccccc
Confidence            46888888888887776654                 68999999999999999999999999999999876542     


Q ss_pred             -ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          264 -DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       264 -~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                       ....++.+|..+  ..|+||||||||.++.   ++.                     ..........++.|++.||++.
T Consensus       255 ~~~~~l~~lf~~a~~~~p~il~iDEid~l~~---~r~---------------------~~~~~~~~~~~~~Ll~~ld~l~  310 (733)
T TIGR01243       255 ESEERLREIFKEAEENAPSIIFIDEIDAIAP---KRE---------------------EVTGEVEKRVVAQLLTLMDGLK  310 (733)
T ss_pred             HHHHHHHHHHHHHHhcCCcEEEeehhhhhcc---ccc---------------------CCcchHHHHHHHHHHHHhhccc
Confidence             235678888765  4689999999999753   221                     0112233567899999999985


Q ss_pred             ccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccC-CCCCHHHHHHh
Q 037859          341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAE-TNMTPADVAEN  419 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~a~i~~~  419 (504)
                      .  ...++||+|||+++.|||++.||||||.+|.++.|+.++|..|++.+...........+..++.. .|++++++..+
T Consensus       311 ~--~~~vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~d~~l~~la~~t~G~~gadl~~l  388 (733)
T TIGR01243       311 G--RGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAAL  388 (733)
T ss_pred             c--CCCEEEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCccccCHHHHHHhCCCCCHHHHHHH
Confidence            4  45688999999999999999999999999999999999999999987654322111123344443 49999999865


Q ss_pred             h
Q 037859          420 L  420 (504)
Q Consensus       420 l  420 (504)
                      +
T Consensus       389 ~  389 (733)
T TIGR01243       389 A  389 (733)
T ss_pred             H
Confidence            4

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.

>PF14363 AAA_assoc: Domain associated at C-terminal with AAA

Probab=99.83  E-value=3e-20  Score=155.88  Aligned_cols=96  Identities=40%  Similarity=0.709  Sum_probs=90.4

Q ss_pred             hchHHHHHHHHHHHHHhhc-ccCCcEEEEEeeccCCcCCccHHHHHHHHHHhcccCCCCCceEEEeeCCCCceEEEecCC
Q 037859           28 YFPYQLQGYVEKYSQKLFR-ILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLHATRFKADVVKDSQSIVLSMDDR  106 (504)
Q Consensus        28 ~~P~~l~~~i~~~~~~l~~-~~~~~~ti~i~e~~~~~~~~n~~y~~~~~~ls~~~~~~~~~l~~~~~~~~~~~~~~~~~~  106 (504)
                      |+|++|+.++.+++++++. +++||+||+|+|+.  |++.|++|+++++||++++++.+++|+++..+++++++++|+++
T Consensus         1 ~~P~~lr~~~~~~~~~~~~~~~s~~~ti~I~E~~--g~~~N~ly~a~~~YL~s~~s~~a~rL~~~~~~~~~~~~l~l~~~   78 (98)
T PF14363_consen    1 LLPHELRSYLRSLLRRLFSSRFSPYLTIVIPEFD--GLSRNELYDAAQAYLSSKISPSARRLKASKSKNSKNLVLSLDDG   78 (98)
T ss_pred             CCCHHHHHHHHHHHHHHHhccCCCcEEEEEEeCC--CccccHHHHHHHHHHhhccCcccceeeecccCCCCceEEecCCC
Confidence            6899999999999987664 99999999999995  58999999999999999999999999999999999999999999


Q ss_pred             CceeeeecCeEEEEEEeee
Q 037859          107 QEVTDEFKGIKVWWVLGKN  125 (504)
Q Consensus       107 ~~v~d~f~g~~~~w~~~~~  125 (504)
                      ++|+|+|+|+++||..++.
T Consensus        79 e~V~D~F~Gv~v~W~~~~~   97 (98)
T PF14363_consen   79 EEVVDVFEGVKVWWSSVCT   97 (98)
T ss_pred             CEEEEEECCEEEEEEEEcc
Confidence            9999999999999999864

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.83  E-value=2.4e-20  Score=186.28  Aligned_cols=206  Identities=22%  Similarity=0.265  Sum_probs=145.6

Q ss_pred             cccchhhhhhhHHHHHhhhhhHHhhhccceecccCCCCCccCccCc------cceeeecCCCccccccccChhHHHHHHH
Q 037859          150 KSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNPSKNWYGWRST------KWSHVFFEHPATFDTLAMETKKKEEIKK  223 (504)
Q Consensus       150 ~~~~~~~~~~yl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~w~~~~~~~p~~f~~~~~~~~~k~~i~~  223 (504)
                      .+....|...|+..+|-.-..++..++.+        ..|.+--..      .-....-....+|+.|++.|.++++|-+
T Consensus       298 tkeg~~V~w~yi~r~LGqPSLiREsSrg~--------~pw~gsls~~k~~i~~~~~~s~~gk~pl~~ViL~psLe~Rie~  369 (630)
T KOG0742|consen  298 TKEGTLVTWRYIERRLGQPSLIRESSRGR--------FPWIGSLSALKHPIQGSRSASSRGKDPLEGVILHPSLEKRIED  369 (630)
T ss_pred             ccccchhHHHHHHHHcCCchhhhhhcccc--------CCCcccHHHHhchhhhhHhhhhcCCCCcCCeecCHHHHHHHHH
Confidence            34456788999988887766665544421        223210000      0001111223459999999999888876


Q ss_pred             hh------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC-----ChHHHHHHHHhc---cCCeEEEE
Q 037859          224 DL------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-----DNSELRSLLIDT---SSKSILVI  283 (504)
Q Consensus       224 ~l------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~-----~~~~l~~l~~~~---~~~~Il~i  283 (504)
                      ..            -|.+|||||||||||++|+-||.+.|+++-.+...++.     ....+.++|.=+   ...-+|||
T Consensus       370 lA~aTaNTK~h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAPlG~qaVTkiH~lFDWakkS~rGLllFI  449 (630)
T KOG0742|consen  370 LAIATANTKKHQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAPLGAQAVTKIHKLFDWAKKSRRGLLLFI  449 (630)
T ss_pred             HHHHhcccccccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCccccchHHHHHHHHHHHHHhhcccceEEEe
Confidence            55            47799999999999999999999999998777666552     335677777543   35678999


Q ss_pred             ecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhh
Q 037859          284 EDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPAL  363 (504)
Q Consensus       284 DeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~AL  363 (504)
                      ||+|+++.-..                       ....+...+..|+.||--- |-   .+..++++.+||+|+.||.|+
T Consensus       450 DEADAFLceRn-----------------------ktymSEaqRsaLNAlLfRT-Gd---qSrdivLvlAtNrpgdlDsAV  502 (630)
T KOG0742|consen  450 DEADAFLCERN-----------------------KTYMSEAQRSALNALLFRT-GD---QSRDIVLVLATNRPGDLDSAV  502 (630)
T ss_pred             hhhHHHHHHhc-----------------------hhhhcHHHHHHHHHHHHHh-cc---cccceEEEeccCCccchhHHH
Confidence            99999863111                       1223344556777777432 22   235689999999999999999


Q ss_pred             hcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          364 IRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       364 lRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      -.  |||..|+|++|..|+|..|+..||.
T Consensus       503 ~D--Ride~veFpLPGeEERfkll~lYln  529 (630)
T KOG0742|consen  503 ND--RIDEVVEFPLPGEEERFKLLNLYLN  529 (630)
T ss_pred             Hh--hhhheeecCCCChHHHHHHHHHHHH
Confidence            99  9999999999999999999998874

>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=99.82  E-value=2.9e-20  Score=163.69  Aligned_cols=123  Identities=33%  Similarity=0.561  Sum_probs=99.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC------ChHHHHHHHHhc--cC-CeEEEEeccccccccccccccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ------DNSELRSLLIDT--SS-KSILVIEDIDCSLDLTGQREKK  299 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~------~~~~l~~l~~~~--~~-~~Il~iDeiD~~~~~~~~~~~~  299 (504)
                      +|||||||||||++|+++|++++.+++.+++..+.      ....+...|..+  .. |+||+|||+|.++...      
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~------   74 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKLFPKS------   74 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGTSHHC------
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceeeeeccchhccccc------
Confidence            58999999999999999999999999999998764      335677777665  34 8999999999986311      


Q ss_pred             ccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecC
Q 037859          300 KEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSY  377 (504)
Q Consensus       300 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~  377 (504)
                                        ...........+..|++.+|..... +.++++|+|||.++.+||+|+| |||+.+|+++.
T Consensus        75 ------------------~~~~~~~~~~~~~~L~~~l~~~~~~-~~~~~vI~ttn~~~~i~~~l~~-~rf~~~i~~~~  132 (132)
T PF00004_consen   75 ------------------QPSSSSFEQRLLNQLLSLLDNPSSK-NSRVIVIATTNSPDKIDPALLR-SRFDRRIEFPL  132 (132)
T ss_dssp             ------------------STSSSHHHHHHHHHHHHHHHTTTTT-SSSEEEEEEESSGGGSCHHHHS-TTSEEEEEE-S
T ss_pred             ------------------ccccccccccccceeeecccccccc-cccceeEEeeCChhhCCHhHHh-CCCcEEEEcCC
Confidence                              0123344567889999999987543 3468999999999999999998 89999999874

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 ....

>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=99.79  E-value=2.7e-18  Score=162.45  Aligned_cols=155  Identities=21%  Similarity=0.284  Sum_probs=110.0

Q ss_pred             cCCCccccccccChhHHHHHHHhh----cc-----cccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHH
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDL----KK-----GYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLL  272 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l----~r-----g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~  272 (504)
                      -.+|.+|++++++++++..+.-.+    .|     .+||||||||||||||..||++++.++..++...+....++..++
T Consensus        17 ~lRP~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k~~dl~~il   96 (233)
T PF05496_consen   17 RLRPKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEKAGDLAAIL   96 (233)
T ss_dssp             HTS-SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--SCHHHHHHH
T ss_pred             hcCCCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhhHHHHHHHH
Confidence            447999999999999988755443    23     489999999999999999999999999998887777778899999


Q ss_pred             HhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc-----ccCC---
Q 037859          273 IDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW-----SASG---  344 (504)
Q Consensus       273 ~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~-----~~~~---  344 (504)
                      .....+.||||||||.+                                   ++...-.|+..|+...     ....   
T Consensus        97 ~~l~~~~ILFIDEIHRl-----------------------------------nk~~qe~LlpamEd~~idiiiG~g~~ar  141 (233)
T PF05496_consen   97 TNLKEGDILFIDEIHRL-----------------------------------NKAQQEILLPAMEDGKIDIIIGKGPNAR  141 (233)
T ss_dssp             HT--TT-EEEECTCCC-------------------------------------HHHHHHHHHHHHCSEEEEEBSSSSS-B
T ss_pred             HhcCCCcEEEEechhhc-----------------------------------cHHHHHHHHHHhccCeEEEEeccccccc
Confidence            98889999999999986                                   2233344555554321     1111   


Q ss_pred             ------CceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          345 ------EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       345 ------~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                            ....+|+||++...|.++|..  ||.....+.+.+.++...|+++....
T Consensus       142 ~~~~~l~~FTligATTr~g~ls~pLrd--RFgi~~~l~~Y~~~el~~Iv~r~a~~  194 (233)
T PF05496_consen  142 SIRINLPPFTLIGATTRAGLLSSPLRD--RFGIVLRLEFYSEEELAKIVKRSARI  194 (233)
T ss_dssp             EEEEE----EEEEEESSGCCTSHCCCT--TSSEEEE----THHHHHHHHHHCCHC
T ss_pred             eeeccCCCceEeeeeccccccchhHHh--hcceecchhcCCHHHHHHHHHHHHHH
Confidence                  235689999999999999999  99998999999999999999876543

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.

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

Probab=99.78  E-value=8.6e-19  Score=170.95  Aligned_cols=160  Identities=20%  Similarity=0.321  Sum_probs=122.2

Q ss_pred             ccccccChhHHHHHHHhh------------------cccccccCCCCCcHHHHHHHHHHhcCC---------cEEEEecc
Q 037859          208 FDTLAMETKKKEEIKKDL------------------KKGYLLYGPPGTGKSTMIAAMANFLNY---------DVYDLELT  260 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l------------------~rg~LL~GPpGtGKTsla~aiA~~l~~---------~i~~l~~~  260 (504)
                      +++++.+.++|++++...                  .|-+|||||||||||+|++|+|..|..         .++.+++.
T Consensus       141 WEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinsh  220 (423)
T KOG0744|consen  141 WESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSH  220 (423)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehh
Confidence            567788899999999887                  677999999999999999999998842         35666666


Q ss_pred             cc------CChHHHHHHHHhcc-----C--CeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhh
Q 037859          261 TV------QDNSELRSLLIDTS-----S--KSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV  327 (504)
Q Consensus       261 ~~------~~~~~l~~l~~~~~-----~--~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  327 (504)
                      ++      +++.-+.++|.+..     .  -..++|||++++..   .|...                 .........-+
T Consensus       221 sLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~---aR~s~-----------------~S~~EpsDaIR  280 (423)
T KOG0744|consen  221 SLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFVLIDEVESLAA---ARTSA-----------------SSRNEPSDAIR  280 (423)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHH---HHHhh-----------------hcCCCCchHHH
Confidence            54      24444555665431     2  24567999999742   22110                 11223345667


Q ss_pred             HHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          328 TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       328 ~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .++.+|.+||.+..  ..++++++|+|-.+.||-|+..  |-|.+.++++|+.+++..|++..+
T Consensus       281 vVNalLTQlDrlK~--~~NvliL~TSNl~~siD~AfVD--RADi~~yVG~Pt~~ai~~Ilksci  340 (423)
T KOG0744|consen  281 VVNALLTQLDRLKR--YPNVLILATSNLTDSIDVAFVD--RADIVFYVGPPTAEAIYEILKSCI  340 (423)
T ss_pred             HHHHHHHHHHHhcc--CCCEEEEeccchHHHHHHHhhh--HhhheeecCCccHHHHHHHHHHHH
Confidence            99999999999954  4668899999999999999999  999999999999999999887654

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

Probab=99.75  E-value=2.4e-17  Score=174.76  Aligned_cols=146  Identities=26%  Similarity=0.391  Sum_probs=111.2

Q ss_pred             cChhHHHHHHHhh----------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHH-------------
Q 037859          213 METKKKEEIKKDL----------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELR-------------  269 (504)
Q Consensus       213 ~~~~~k~~i~~~l----------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~-------------  269 (504)
                      +-.++|++|++++          .+-++|+||||+||||++++||..||..++.+++..+.+..+++             
T Consensus       415 gm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGHRRTYVGAMPGk  494 (906)
T KOG2004|consen  415 GMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGHRRTYVGAMPGK  494 (906)
T ss_pred             chHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhcccceeeeccCChH
Confidence            3456899999999          33478999999999999999999999999999999988776663             


Q ss_pred             --HHHHhc-cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc----
Q 037859          270 --SLLIDT-SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA----  342 (504)
Q Consensus       270 --~l~~~~-~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~----  342 (504)
                        +.+... ..+.+++|||||.+    |+.                        ..+   ...+.||..||--...    
T Consensus       495 iIq~LK~v~t~NPliLiDEvDKl----G~g------------------------~qG---DPasALLElLDPEQNanFlD  543 (906)
T KOG2004|consen  495 IIQCLKKVKTENPLILIDEVDKL----GSG------------------------HQG---DPASALLELLDPEQNANFLD  543 (906)
T ss_pred             HHHHHHhhCCCCceEEeehhhhh----CCC------------------------CCC---ChHHHHHHhcChhhccchhh
Confidence              222222 36789999999996    211                        111   1234455444422110    


Q ss_pred             -------CCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          343 -------SGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       343 -------~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                             .-..++||||.|..+.|+|+|+.  || ..|+++-...++...|+++||-
T Consensus       544 HYLdVp~DLSkVLFicTAN~idtIP~pLlD--RM-EvIelsGYv~eEKv~IA~~yLi  597 (906)
T KOG2004|consen  544 HYLDVPVDLSKVLFICTANVIDTIPPPLLD--RM-EVIELSGYVAEEKVKIAERYLI  597 (906)
T ss_pred             hccccccchhheEEEEeccccccCChhhhh--hh-heeeccCccHHHHHHHHHHhhh
Confidence                   01348999999999999999999  99 4799999999999999999983

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.73  E-value=2.8e-17  Score=168.21  Aligned_cols=154  Identities=21%  Similarity=0.273  Sum_probs=119.9

Q ss_pred             CCccccccccChhHHHHHHHhh---------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHh
Q 037859          204 HPATFDTLAMETKKKEEIKKDL---------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLID  274 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l---------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~  274 (504)
                      .|.+|+.+++.++.++.+...+         ++++|||||||||||++|+++|++++.++...+...+.....+..++..
T Consensus        20 rP~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~~~~l~~~l~~   99 (328)
T PRK00080         20 RPKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPGDLAAILTN   99 (328)
T ss_pred             CcCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccChHHHHHHHHh
Confidence            5889999999999998876555         3569999999999999999999999999888777666666778888888


Q ss_pred             ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc---------ccc---
Q 037859          275 TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL---------WSA---  342 (504)
Q Consensus       275 ~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~---------~~~---  342 (504)
                      ...++||||||||.+-.   .                                ....|.+.|+..         .+.   
T Consensus       100 l~~~~vl~IDEi~~l~~---~--------------------------------~~e~l~~~~e~~~~~~~l~~~~~~~~~  144 (328)
T PRK00080        100 LEEGDVLFIDEIHRLSP---V--------------------------------VEEILYPAMEDFRLDIMIGKGPAARSI  144 (328)
T ss_pred             cccCCEEEEecHhhcch---H--------------------------------HHHHHHHHHHhcceeeeeccCccccce
Confidence            88899999999998621   0                                011122222211         000   


Q ss_pred             --CCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcC
Q 037859          343 --SGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDID  394 (504)
Q Consensus       343 --~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~  394 (504)
                        .-...++|++||+...++++|.+  ||+..+.+++++.+++..|+++.....
T Consensus       145 ~~~l~~~~li~at~~~~~l~~~L~s--Rf~~~~~l~~~~~~e~~~il~~~~~~~  196 (328)
T PRK00080        145 RLDLPPFTLIGATTRAGLLTSPLRD--RFGIVQRLEFYTVEELEKIVKRSARIL  196 (328)
T ss_pred             eecCCCceEEeecCCcccCCHHHHH--hcCeeeecCCCCHHHHHHHHHHHHHHc
Confidence              01236789999999999999999  999999999999999999999876543

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

Probab=99.72  E-value=2.4e-16  Score=168.14  Aligned_cols=146  Identities=26%  Similarity=0.332  Sum_probs=114.4

Q ss_pred             cChhHHHHHHHhh--------ccc--ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHH------------H
Q 037859          213 METKKKEEIKKDL--------KKG--YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELR------------S  270 (504)
Q Consensus       213 ~~~~~k~~i~~~l--------~rg--~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~------------~  270 (504)
                      +-+++|++|++.+        -+|  ++|+||||+|||||+++||..+|..++.++++.+.+..++|            +
T Consensus       327 GLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHRRTYIGamPGr  406 (782)
T COG0466         327 GLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIGAMPGK  406 (782)
T ss_pred             CchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccccccccccCChH
Confidence            4456899999999        333  67899999999999999999999999999999998888774            1


Q ss_pred             H---HHhc-cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc----
Q 037859          271 L---LIDT-SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA----  342 (504)
Q Consensus       271 l---~~~~-~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~----  342 (504)
                      +   +..+ ..+.+++|||||.+.    +                           .......|.||..||--...    
T Consensus       407 IiQ~mkka~~~NPv~LLDEIDKm~----s---------------------------s~rGDPaSALLEVLDPEQN~~F~D  455 (782)
T COG0466         407 IIQGMKKAGVKNPVFLLDEIDKMG----S---------------------------SFRGDPASALLEVLDPEQNNTFSD  455 (782)
T ss_pred             HHHHHHHhCCcCCeEEeechhhcc----C---------------------------CCCCChHHHHHhhcCHhhcCchhh
Confidence            2   2222 357899999999972    1                           11122346677766632211    


Q ss_pred             -------CCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          343 -------SGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       343 -------~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                             .-.+++||+|+|..+.||.+|+.  || ..|+++-.+.++...|+++||-
T Consensus       456 hYLev~yDLS~VmFiaTANsl~tIP~PLlD--RM-EiI~lsgYt~~EKl~IAk~~Li  509 (782)
T COG0466         456 HYLEVPYDLSKVMFIATANSLDTIPAPLLD--RM-EVIRLSGYTEDEKLEIAKRHLI  509 (782)
T ss_pred             ccccCccchhheEEEeecCccccCChHHhc--ce-eeeeecCCChHHHHHHHHHhcc
Confidence                   11458999999999999999999  99 5899999999999999999983

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.69  E-value=1.5e-16  Score=161.16  Aligned_cols=149  Identities=18%  Similarity=0.246  Sum_probs=114.7

Q ss_pred             cccccccChhHHHHHHHhh---------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccC
Q 037859          207 TFDTLAMETKKKEEIKKDL---------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSS  277 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l---------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~  277 (504)
                      +|++++++++.++.+...+         +.+++||||||||||++|+++|++++.++..+..........+...+.....
T Consensus         2 ~~~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~   81 (305)
T TIGR00635         2 LLAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKPGDLAAILTNLEE   81 (305)
T ss_pred             CHHHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcCchhHHHHHHhccc
Confidence            5888999999988877766         3458999999999999999999999998877776655555677777777778


Q ss_pred             CeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc--------------ccC
Q 037859          278 KSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW--------------SAS  343 (504)
Q Consensus       278 ~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~--------------~~~  343 (504)
                      +.||||||||.+.+                                   .....|++.++...              ...
T Consensus        82 ~~vl~iDEi~~l~~-----------------------------------~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~  126 (305)
T TIGR00635        82 GDVLFIDEIHRLSP-----------------------------------AVEELLYPAMEDFRLDIVIGKGPSARSVRLD  126 (305)
T ss_pred             CCEEEEehHhhhCH-----------------------------------HHHHHhhHHHhhhheeeeeccCccccceeec
Confidence            89999999998621                                   01112233322111              001


Q ss_pred             CCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          344 GEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       344 ~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ....++|++||++..++++|++  ||...+.++.++.++...+++....
T Consensus       127 ~~~~~li~~t~~~~~l~~~l~s--R~~~~~~l~~l~~~e~~~il~~~~~  173 (305)
T TIGR00635       127 LPPFTLVGATTRAGMLTSPLRD--RFGIILRLEFYTVEELAEIVSRSAG  173 (305)
T ss_pred             CCCeEEEEecCCccccCHHHHh--hcceEEEeCCCCHHHHHHHHHHHHH
Confidence            1337899999999999999999  9998999999999999999987764

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.

>TIGR00763 lon ATP-dependent protease La

Probab=99.68  E-value=5.7e-16  Score=175.01  Aligned_cols=148  Identities=27%  Similarity=0.296  Sum_probs=110.4

Q ss_pred             cccChhHHHHHHHhh----------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCCh---------------
Q 037859          211 LAMETKKKEEIKKDL----------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDN---------------  265 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l----------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~---------------  265 (504)
                      +.+.++.|+.|.+.+          +..+||+||||||||++|++||+.++.+++.++++.+.+.               
T Consensus       322 ~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~~~~~~g~~~  401 (775)
T TIGR00763       322 HYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHRRTYVGAMP  401 (775)
T ss_pred             cCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCCCCceeCCCC
Confidence            667788899988866          2349999999999999999999999999999987665332               


Q ss_pred             HHHHHHHHhc-cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc----
Q 037859          266 SELRSLLIDT-SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW----  340 (504)
Q Consensus       266 ~~l~~l~~~~-~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~----  340 (504)
                      ..+.+.|..+ ..+.||||||||.+..  +.                             .....+.||..||...    
T Consensus       402 g~i~~~l~~~~~~~~villDEidk~~~--~~-----------------------------~~~~~~aLl~~ld~~~~~~f  450 (775)
T TIGR00763       402 GRIIQGLKKAKTKNPLFLLDEIDKIGS--SF-----------------------------RGDPASALLEVLDPEQNNAF  450 (775)
T ss_pred             chHHHHHHHhCcCCCEEEEechhhcCC--cc-----------------------------CCCHHHHHHHhcCHHhcCcc
Confidence            2344455443 3456999999999731  00                             0012456666666310    


Q ss_pred             -c------cCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          341 -S------ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       341 -~------~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                       .      ..-.++++|+|||..+.|||+|++  ||+ .|+|+.++.+++..|+++|+.
T Consensus       451 ~d~~~~~~~d~s~v~~I~TtN~~~~i~~~L~~--R~~-vi~~~~~~~~e~~~I~~~~l~  506 (775)
T TIGR00763       451 SDHYLDVPFDLSKVIFIATANSIDTIPRPLLD--RME-VIELSGYTEEEKLEIAKKYLI  506 (775)
T ss_pred             ccccCCceeccCCEEEEEecCCchhCCHHHhC--Cee-EEecCCCCHHHHHHHHHHHHH
Confidence             0      011357899999999999999999  995 789999999999999999873

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.68  E-value=4.2e-16  Score=167.55  Aligned_cols=150  Identities=17%  Similarity=0.274  Sum_probs=120.9

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC-------------------------
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY-------------------------  252 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~-------------------------  252 (504)
                      .+|.+|++|++++..++.|...+     +..|||+||+|||||++|+.+|+.+++                         
T Consensus        10 YRPqtFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~a   89 (700)
T PRK12323         10 WRPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDA   89 (700)
T ss_pred             hCCCcHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHc
Confidence            37999999999999999998888     556999999999999999999999976                         


Q ss_pred             ----cEEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCC
Q 037859          253 ----DVYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGS  322 (504)
Q Consensus       253 ----~i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  322 (504)
                          +++.++..+-.+.++++.++...      ....|+||||+|.+                                 
T Consensus        90 G~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~L---------------------------------  136 (700)
T PRK12323         90 GRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHML---------------------------------  136 (700)
T ss_pred             CCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhc---------------------------------
Confidence                45555554434456677766553      24679999999986                                 


Q ss_pred             cchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcC
Q 037859          323 KKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDID  394 (504)
Q Consensus       323 ~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~  394 (504)
                        +....+.||..|+.-    .+.++||++||.+.+|.+.+++  |+ .++.|..++.++....++..+..+
T Consensus       137 --s~~AaNALLKTLEEP----P~~v~FILaTtep~kLlpTIrS--RC-q~f~f~~ls~eei~~~L~~Il~~E  199 (700)
T PRK12323        137 --TNHAFNAMLKTLEEP----PEHVKFILATTDPQKIPVTVLS--RC-LQFNLKQMPPGHIVSHLDAILGEE  199 (700)
T ss_pred             --CHHHHHHHHHhhccC----CCCceEEEEeCChHhhhhHHHH--HH-HhcccCCCChHHHHHHHHHHHHHc
Confidence              234678899988753    3567899999999999999999  88 789999999999888888776543

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.67  E-value=1.2e-15  Score=166.07  Aligned_cols=148  Identities=16%  Similarity=0.278  Sum_probs=118.6

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i  254 (504)
                      +|.+|+++++++..++.|...+     +..||||||+|||||++++++|+.+++                        ++
T Consensus        11 RPqtFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~Dv   90 (830)
T PRK07003         11 RPKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDY   90 (830)
T ss_pred             CCCcHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceE
Confidence            6999999999999999998888     456899999999999999999998865                        35


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++..+-.+.++++.++...      ....|+||||+|.+                                   +...
T Consensus        91 iEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~L-----------------------------------T~~A  135 (830)
T PRK07003         91 VEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHML-----------------------------------TNHA  135 (830)
T ss_pred             EEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhC-----------------------------------CHHH
Confidence            555554333445677776553      24579999999986                                   1235


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      .+.||..|+..    ...++||++||.+++|.+.|++  |+ .++.|..++.++....++..+..
T Consensus       136 ~NALLKtLEEP----P~~v~FILaTtd~~KIp~TIrS--RC-q~f~Fk~Ls~eeIv~~L~~Il~~  193 (830)
T PRK07003        136 FNAMLKTLEEP----PPHVKFILATTDPQKIPVTVLS--RC-LQFNLKQMPAGHIVSHLERILGE  193 (830)
T ss_pred             HHHHHHHHHhc----CCCeEEEEEECChhhccchhhh--he-EEEecCCcCHHHHHHHHHHHHHH
Confidence            67888888754    3458899999999999999999  98 78999999999988888877643

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.67  E-value=4.8e-16  Score=163.30  Aligned_cols=148  Identities=16%  Similarity=0.343  Sum_probs=114.6

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------c
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------D  253 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~  253 (504)
                      .+|.+|+++++++...+.+...+     +..||||||||||||++|+++|+.+++                        +
T Consensus        12 yRP~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~d   91 (484)
T PRK14956         12 YRPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGISSD   91 (484)
T ss_pred             hCCCCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccCCcc
Confidence            36999999999999988888877     345899999999999999999999876                        2


Q ss_pred             EEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhh
Q 037859          254 VYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV  327 (504)
Q Consensus       254 i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  327 (504)
                      ++.++...-.+.+.++.+....      ....|+||||+|.+                                   +..
T Consensus        92 viEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~L-----------------------------------s~~  136 (484)
T PRK14956         92 VLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHML-----------------------------------TDQ  136 (484)
T ss_pred             ceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhc-----------------------------------CHH
Confidence            4555543323344555554332      24579999999986                                   233


Q ss_pred             HHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          328 TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       328 ~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .++.||..|+.-    ...+++|++||.++.|.+++++  |+ .++.|..++.++....++..+.
T Consensus       137 A~NALLKtLEEP----p~~viFILaTte~~kI~~TI~S--RC-q~~~f~~ls~~~i~~~L~~i~~  194 (484)
T PRK14956        137 SFNALLKTLEEP----PAHIVFILATTEFHKIPETILS--RC-QDFIFKKVPLSVLQDYSEKLCK  194 (484)
T ss_pred             HHHHHHHHhhcC----CCceEEEeecCChhhccHHHHh--hh-heeeecCCCHHHHHHHHHHHHH
Confidence            678888888753    3568899999999999999999  98 5799999988887777776643

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.67  E-value=6.7e-16  Score=164.22  Aligned_cols=147  Identities=24%  Similarity=0.373  Sum_probs=113.9

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------c
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------D  253 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~  253 (504)
                      .+|.+|+++++++..++.+...+     +.+||||||||||||++|+++|+.+++                        +
T Consensus         8 yRP~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~d   87 (472)
T PRK14962          8 YRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMD   87 (472)
T ss_pred             HCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCc
Confidence            36999999999999988887777     456899999999999999999999875                        4


Q ss_pred             EEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhh
Q 037859          254 VYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV  327 (504)
Q Consensus       254 i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  327 (504)
                      ++.++.+.-.+...++++....      ..+.||+|||+|.+-                                   ..
T Consensus        88 v~el~aa~~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt-----------------------------------~~  132 (472)
T PRK14962         88 VIELDAASNRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLT-----------------------------------KE  132 (472)
T ss_pred             cEEEeCcccCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhH-----------------------------------HH
Confidence            6666665434445666655433      245799999999861                                   22


Q ss_pred             HHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          328 TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       328 ~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .+..||..++..    ++.+++|++||.++.++++|.+  |+ ..+.|..++.++...+++...
T Consensus       133 a~~~LLk~LE~p----~~~vv~Ilattn~~kl~~~L~S--R~-~vv~f~~l~~~el~~~L~~i~  189 (472)
T PRK14962        133 AFNALLKTLEEP----PSHVVFVLATTNLEKVPPTIIS--RC-QVIEFRNISDELIIKRLQEVA  189 (472)
T ss_pred             HHHHHHHHHHhC----CCcEEEEEEeCChHhhhHHHhc--Cc-EEEEECCccHHHHHHHHHHHH
Confidence            457788888753    3457778888888899999999  88 579999999988887777654

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.66  E-value=7.2e-16  Score=152.81  Aligned_cols=152  Identities=18%  Similarity=0.276  Sum_probs=107.0

Q ss_pred             ccccccChhHHHHHHHhh-------------------cccccccCCCCCcHHHHHHHHHHhc---C----CcEEEEeccc
Q 037859          208 FDTLAMETKKKEEIKKDL-------------------KKGYLLYGPPGTGKSTMIAAMANFL---N----YDVYDLELTT  261 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l-------------------~rg~LL~GPpGtGKTsla~aiA~~l---~----~~i~~l~~~~  261 (504)
                      ++.+++-+.+|++|.+.+                   ..++|||||||||||++|+++|+.+   +    .+++.++++.
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            456777777887765443                   2347999999999999999999875   2    2455665554


Q ss_pred             cC------ChHHHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhh
Q 037859          262 VQ------DNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNF  335 (504)
Q Consensus       262 ~~------~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~  335 (504)
                      +.      ....++.+|..+ .++||||||+|.+..  +                         +........+..|+..
T Consensus        85 l~~~~~g~~~~~~~~~~~~a-~~~VL~IDE~~~L~~--~-------------------------~~~~~~~~~i~~Ll~~  136 (261)
T TIGR02881        85 LVGEYIGHTAQKTREVIKKA-LGGVLFIDEAYSLAR--G-------------------------GEKDFGKEAIDTLVKG  136 (261)
T ss_pred             hhhhhccchHHHHHHHHHhc-cCCEEEEechhhhcc--C-------------------------CccchHHHHHHHHHHH
Confidence            32      234556666554 468999999999731  0                         0111234467778888


Q ss_pred             hcCccccCCCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          336 IDGLWSASGEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       336 lDg~~~~~~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      |+..    +...++|++++..+     .++|+|.+  ||+.+|+|+.++.+++..|++.++..
T Consensus       137 ~e~~----~~~~~vila~~~~~~~~~~~~~p~L~s--Rf~~~i~f~~~~~~el~~Il~~~~~~  193 (261)
T TIGR02881       137 MEDN----RNEFVLILAGYSDEMDYFLSLNPGLRS--RFPISIDFPDYTVEELMEIAERMVKE  193 (261)
T ss_pred             Hhcc----CCCEEEEecCCcchhHHHHhcChHHHh--ccceEEEECCCCHHHHHHHHHHHHHH
Confidence            8764    23456666654333     37899999  99999999999999999999988753

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.

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.65  E-value=7.9e-16  Score=165.79  Aligned_cols=148  Identities=20%  Similarity=0.341  Sum_probs=118.3

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i  254 (504)
                      +|.+|+++++++..++.|...+     +.+|||+||||||||++|+++|+.+++                        ++
T Consensus        10 RPktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDv   89 (702)
T PRK14960         10 RPRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDL   89 (702)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCce
Confidence            6899999999999999988888     567999999999999999999999875                        56


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++.++-.....++.++...      .+..|++|||+|.+                                   +...
T Consensus        90 iEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~L-----------------------------------S~~A  134 (702)
T PRK14960         90 IEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHML-----------------------------------STHS  134 (702)
T ss_pred             EEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhc-----------------------------------CHHH
Confidence            666665444556777776654      24579999999986                                   1235


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      .+.||..|+..    .+.+.+|++||.+.++++.+++  |+ .++.|..++.++....++..+..
T Consensus       135 ~NALLKtLEEP----P~~v~FILaTtd~~kIp~TIlS--RC-q~feFkpLs~eEI~k~L~~Il~k  192 (702)
T PRK14960        135 FNALLKTLEEP----PEHVKFLFATTDPQKLPITVIS--RC-LQFTLRPLAVDEITKHLGAILEK  192 (702)
T ss_pred             HHHHHHHHhcC----CCCcEEEEEECChHhhhHHHHH--hh-heeeccCCCHHHHHHHHHHHHHH
Confidence            67788888753    3456888888889999999998  88 68999999999888877766643

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

Probab=99.64  E-value=1.4e-15  Score=146.82  Aligned_cols=153  Identities=20%  Similarity=0.267  Sum_probs=124.1

Q ss_pred             cCCCccccccccChhHHHHHHHhh---------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHH
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDL---------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLL  272 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l---------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~  272 (504)
                      ..+|..|+++++++++|+.+--.+         .-.+|||||||.||||||..||+++|.++-..+...+....+|..++
T Consensus        19 ~lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK~gDlaaiL   98 (332)
T COG2255          19 SLRPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEKPGDLAAIL   98 (332)
T ss_pred             ccCcccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccChhhHHHHH
Confidence            346899999999999999887777         23489999999999999999999999999988888888889999999


Q ss_pred             HhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc--------ccC-
Q 037859          273 IDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW--------SAS-  343 (504)
Q Consensus       273 ~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~--------~~~-  343 (504)
                      ......-|+|||||+.+-+                                   .+---|--.|+.+.        ... 
T Consensus        99 t~Le~~DVLFIDEIHrl~~-----------------------------------~vEE~LYpaMEDf~lDI~IG~gp~Ar  143 (332)
T COG2255          99 TNLEEGDVLFIDEIHRLSP-----------------------------------AVEEVLYPAMEDFRLDIIIGKGPAAR  143 (332)
T ss_pred             hcCCcCCeEEEehhhhcCh-----------------------------------hHHHHhhhhhhheeEEEEEccCCccc
Confidence            9999999999999998621                                   01111112222110        000 


Q ss_pred             -----CCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          344 -----GEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       344 -----~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                           -....+|++|.+...|...|..  ||.+...+.+.+.++...|+++.-
T Consensus       144 sv~ldLppFTLIGATTr~G~lt~PLrd--RFGi~~rlefY~~~eL~~Iv~r~a  194 (332)
T COG2255         144 SIRLDLPPFTLIGATTRAGMLTNPLRD--RFGIIQRLEFYTVEELEEIVKRSA  194 (332)
T ss_pred             eEeccCCCeeEeeeccccccccchhHH--hcCCeeeeecCCHHHHHHHHHHHH
Confidence                 1335799999999999999999  999999999999999999998764

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.63  E-value=6.1e-15  Score=152.95  Aligned_cols=148  Identities=20%  Similarity=0.330  Sum_probs=112.5

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i  254 (504)
                      .|.+|+++++++..++.+...+     +..|||+||||||||++|+++|+.+++                        ++
T Consensus        11 rP~~~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~   90 (363)
T PRK14961         11 RPQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDL   90 (363)
T ss_pred             CCCchhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            5889999999999999888877     556899999999999999999998863                        34


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++...-.....++.++...      ....|++|||+|.+                                   +...
T Consensus        91 ~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l-----------------------------------~~~a  135 (363)
T PRK14961         91 IEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHML-----------------------------------SRHS  135 (363)
T ss_pred             EEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhc-----------------------------------CHHH
Confidence            444443323345566665543      24569999999985                                   1224


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      .+.||..++..    +....+|++|+.++.+.+++..  |+ ..++|+.++.++...+++..+..
T Consensus       136 ~naLLk~lEe~----~~~~~fIl~t~~~~~l~~tI~S--Rc-~~~~~~~l~~~el~~~L~~~~~~  193 (363)
T PRK14961        136 FNALLKTLEEP----PQHIKFILATTDVEKIPKTILS--RC-LQFKLKIISEEKIFNFLKYILIK  193 (363)
T ss_pred             HHHHHHHHhcC----CCCeEEEEEcCChHhhhHHHHh--hc-eEEeCCCCCHHHHHHHHHHHHHH
Confidence            56788887753    3456788888888999999998  87 68999999999998888776543

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

Probab=99.63  E-value=6.4e-16  Score=173.71  Aligned_cols=154  Identities=23%  Similarity=0.336  Sum_probs=116.3

Q ss_pred             CCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCC-----
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQD-----  264 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~-----  264 (504)
                      .|..++.+++.++..++++..+    +.++||+||||||||++++++|..+          +..++.++++.+..     
T Consensus       177 r~~~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~  256 (731)
T TIGR02639       177 KNGKIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYR  256 (731)
T ss_pred             hcCCCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhcccc
Confidence            5777999999999888888777    5679999999999999999999987          78899999776532     


Q ss_pred             ---hHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          265 ---NSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       265 ---~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                         ...++++|..+.  .++||||||||.++..   +.                    ..++   .....+-|+..+.  
T Consensus       257 g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~---g~--------------------~~~~---~~~~~~~L~~~l~--  308 (731)
T TIGR02639       257 GDFEERLKAVVSEIEKEPNAILFIDEIHTIVGA---GA--------------------TSGG---SMDASNLLKPALS--  308 (731)
T ss_pred             chHHHHHHHHHHHHhccCCeEEEEecHHHHhcc---CC--------------------CCCc---cHHHHHHHHHHHh--
Confidence               257888887653  5899999999998631   10                    0001   1111222333332  


Q ss_pred             cccCCCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          340 WSASGEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                          .+++.+|++||..+     .+|+||.|  ||+ .|+++.|+.+++..|++....
T Consensus       309 ----~g~i~~IgaTt~~e~~~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~il~~~~~  359 (731)
T TIGR02639       309 ----SGKLRCIGSTTYEEYKNHFEKDRALSR--RFQ-KIDVGEPSIEETVKILKGLKE  359 (731)
T ss_pred             ----CCCeEEEEecCHHHHHHHhhhhHHHHH--hCc-eEEeCCCCHHHHHHHHHHHHH
Confidence                35688999998744     47999999  996 799999999999999996553

>CHL00181 cbbX CbbX; Provisional

Probab=99.62  E-value=1.8e-15  Score=151.56  Aligned_cols=152  Identities=18%  Similarity=0.285  Sum_probs=106.7

Q ss_pred             cccccChhHHHHHHHhh-----------------ccc--ccccCCCCCcHHHHHHHHHHhcC-------CcEEEEecccc
Q 037859          209 DTLAMETKKKEEIKKDL-----------------KKG--YLLYGPPGTGKSTMIAAMANFLN-------YDVYDLELTTV  262 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l-----------------~rg--~LL~GPpGtGKTsla~aiA~~l~-------~~i~~l~~~~~  262 (504)
                      +.+++.+.+|++|.+.+                 ..|  +||+||||||||++|+++|..+.       .+++.++...+
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l  102 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDL  102 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHH
Confidence            35677777777665443                 134  79999999999999999998752       24676665443


Q ss_pred             C------ChHHHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhh
Q 037859          263 Q------DNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI  336 (504)
Q Consensus       263 ~------~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~l  336 (504)
                      .      +......+|..+ .++||||||+|.+..   .+                       +....+...+..|+..|
T Consensus       103 ~~~~~g~~~~~~~~~l~~a-~ggVLfIDE~~~l~~---~~-----------------------~~~~~~~e~~~~L~~~m  155 (287)
T CHL00181        103 VGQYIGHTAPKTKEVLKKA-MGGVLFIDEAYYLYK---PD-----------------------NERDYGSEAIEILLQVM  155 (287)
T ss_pred             HHHHhccchHHHHHHHHHc-cCCEEEEEccchhcc---CC-----------------------CccchHHHHHHHHHHHH
Confidence            1      223445556554 568999999998642   00                       01123455677888888


Q ss_pred             cCccccCCCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          337 DGLWSASGEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       337 Dg~~~~~~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      +..    ...++||++++...     .++|+|.+  ||+.+|+|+.++.+++..|++.++..
T Consensus       156 e~~----~~~~~vI~ag~~~~~~~~~~~np~L~s--R~~~~i~F~~~t~~el~~I~~~~l~~  211 (287)
T CHL00181        156 ENQ----RDDLVVIFAGYKDRMDKFYESNPGLSS--RIANHVDFPDYTPEELLQIAKIMLEE  211 (287)
T ss_pred             hcC----CCCEEEEEeCCcHHHHHHHhcCHHHHH--hCCceEEcCCcCHHHHHHHHHHHHHH
Confidence            753    24467777775322     34699999  99999999999999999999999854

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.62  E-value=4.2e-15  Score=158.81  Aligned_cols=149  Identities=21%  Similarity=0.371  Sum_probs=117.1

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC-------------------------
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY-------------------------  252 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~-------------------------  252 (504)
                      .+|.+|+++++++...+.+...+     +.+|||+||||||||++|+++|+.+++                         
T Consensus        15 yRP~~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~   94 (507)
T PRK06645         15 YRPSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNH   94 (507)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcC
Confidence            47999999999999998887766     467999999999999999999999865                         


Q ss_pred             ---cEEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCc
Q 037859          253 ---DVYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSK  323 (504)
Q Consensus       253 ---~i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  323 (504)
                         +++.++..+-.+..+++.++..+      ....|++|||+|.+                                  
T Consensus        95 ~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~L----------------------------------  140 (507)
T PRK06645         95 NHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHML----------------------------------  140 (507)
T ss_pred             CCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhc----------------------------------
Confidence               34444444334556777777654      24679999999986                                  


Q ss_pred             chhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          324 KSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       324 ~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                       +...++.||..|+..    +...++|++|+.++++++++.+  |+ ..++|..++.++...+++..+..
T Consensus       141 -s~~a~naLLk~LEep----p~~~vfI~aTte~~kI~~tI~S--Rc-~~~ef~~ls~~el~~~L~~i~~~  202 (507)
T PRK06645        141 -SKGAFNALLKTLEEP----PPHIIFIFATTEVQKIPATIIS--RC-QRYDLRRLSFEEIFKLLEYITKQ  202 (507)
T ss_pred             -CHHHHHHHHHHHhhc----CCCEEEEEEeCChHHhhHHHHh--cc-eEEEccCCCHHHHHHHHHHHHHH
Confidence             123567788888743    3557888888999999999999  88 68999999999988888777643

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.62  E-value=2.8e-15  Score=161.06  Aligned_cols=147  Identities=17%  Similarity=0.302  Sum_probs=116.0

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc------------------------E
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD------------------------V  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~------------------------i  254 (504)
                      +|.+|+++++++..++.+...+     +..|||+||||||||++|+++|+.+++.                        +
T Consensus        11 RP~~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~   90 (509)
T PRK14958         11 RPRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDL   90 (509)
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceE
Confidence            6999999999999999998888     5669999999999999999999998652                        6


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++..+-...+.++.++...      .+..|++|||+|.+                                   +...
T Consensus        91 ~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~l-----------------------------------s~~a  135 (509)
T PRK14958         91 FEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHML-----------------------------------SGHS  135 (509)
T ss_pred             EEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhc-----------------------------------CHHH
Confidence            667765545556677776543      24569999999986                                   1235


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .+.||..|+..    .+.+++|++|+.+.++.+.++.  |+ ..++|..++.++....++..+.
T Consensus       136 ~naLLk~LEep----p~~~~fIlattd~~kl~~tI~S--Rc-~~~~f~~l~~~~i~~~l~~il~  192 (509)
T PRK14958        136 FNALLKTLEEP----PSHVKFILATTDHHKLPVTVLS--RC-LQFHLAQLPPLQIAAHCQHLLK  192 (509)
T ss_pred             HHHHHHHHhcc----CCCeEEEEEECChHhchHHHHH--Hh-hhhhcCCCCHHHHHHHHHHHHH
Confidence            67889888854    3457788888889999999998  87 6789998888877666555543

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.61  E-value=4.8e-15  Score=157.24  Aligned_cols=148  Identities=17%  Similarity=0.299  Sum_probs=119.5

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcC------------------------CcE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLN------------------------YDV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~------------------------~~i  254 (504)
                      +|.+|+++++++..++.+...+     +.+|||+||||||||++|+.+|+.++                        .++
T Consensus         8 RP~~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv   87 (491)
T PRK14964          8 RPSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV   87 (491)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence            6899999999999998887776     66799999999999999999998763                        356


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++.++-.+.++++.++...      ...-|++|||+|.+                                   +...
T Consensus        88 ~eidaas~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~L-----------------------------------s~~A  132 (491)
T PRK14964         88 IEIDAASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHML-----------------------------------SNSA  132 (491)
T ss_pred             EEEecccCCCHHHHHHHHHHHHhccccCCceEEEEeChHhC-----------------------------------CHHH
Confidence            777776655667788777654      24679999999986                                   1235


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      ++.||..|+..    .+..++|++|+.+++|.+.++.  |+ ..++|..++.++....+...+..
T Consensus       133 ~NaLLK~LEeP----p~~v~fIlatte~~Kl~~tI~S--Rc-~~~~f~~l~~~el~~~L~~ia~~  190 (491)
T PRK14964        133 FNALLKTLEEP----APHVKFILATTEVKKIPVTIIS--RC-QRFDLQKIPTDKLVEHLVDIAKK  190 (491)
T ss_pred             HHHHHHHHhCC----CCCeEEEEEeCChHHHHHHHHH--hh-eeeecccccHHHHHHHHHHHHHH
Confidence            78899998864    3457888899999999999999  88 67999999998888887776543

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

Probab=99.61  E-value=3.7e-15  Score=150.18  Aligned_cols=143  Identities=26%  Similarity=0.390  Sum_probs=108.7

Q ss_pred             CCccccccccChhHH--HHHHH-hh----cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhc-
Q 037859          204 HPATFDTLAMETKKK--EEIKK-DL----KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDT-  275 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k--~~i~~-~l----~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~-  275 (504)
                      +|++|+++++++++.  ..++. .+    -..++|||||||||||+|+.||+.++.++..++...- +..+++.++.++ 
T Consensus        19 RP~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~~-gvkdlr~i~e~a~   97 (436)
T COG2256          19 RPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTS-GVKDLREIIEEAR   97 (436)
T ss_pred             CCCCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccccc-cHHHHHHHHHHHH
Confidence            599999999988654  12222 22    3458999999999999999999999999998875433 457888888776 


Q ss_pred             -----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEE
Q 037859          276 -----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIV  350 (504)
Q Consensus       276 -----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI  350 (504)
                           .++.|||||||+.+                                   ++.-...||-.++      .+.+++|
T Consensus        98 ~~~~~gr~tiLflDEIHRf-----------------------------------nK~QQD~lLp~vE------~G~iilI  136 (436)
T COG2256          98 KNRLLGRRTILFLDEIHRF-----------------------------------NKAQQDALLPHVE------NGTIILI  136 (436)
T ss_pred             HHHhcCCceEEEEehhhhc-----------------------------------Chhhhhhhhhhhc------CCeEEEE
Confidence                 35899999999986                                   1223345666654      2457888


Q ss_pred             Eec--CCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          351 FTT--NYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       351 ~tT--N~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      +||  |..-.|.+||+.  |. +...+...+.++.++++++-+
T Consensus       137 GATTENPsF~ln~ALlS--R~-~vf~lk~L~~~di~~~l~ra~  176 (436)
T COG2256         137 GATTENPSFELNPALLS--RA-RVFELKPLSSEDIKKLLKRAL  176 (436)
T ss_pred             eccCCCCCeeecHHHhh--hh-heeeeecCCHHHHHHHHHHHH
Confidence            865  666689999999  77 678899999999999988843

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.60  E-value=2.8e-14  Score=160.22  Aligned_cols=148  Identities=22%  Similarity=0.326  Sum_probs=115.5

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC-------------------------
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY-------------------------  252 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~-------------------------  252 (504)
                      .+|.+|++|++++..++.|...+     +..||||||+|||||++|+.+|+.|++                         
T Consensus         9 yRP~~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~   88 (824)
T PRK07764          9 YRPATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGS   88 (824)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCC
Confidence            46899999999999999988888     456999999999999999999999964                         


Q ss_pred             -cEEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcch
Q 037859          253 -DVYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKS  325 (504)
Q Consensus       253 -~i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  325 (504)
                       +++.++.......++++.+....      ....|+||||+|.+                                   +
T Consensus        89 ~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~l-----------------------------------t  133 (824)
T PRK07764         89 LDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMV-----------------------------------T  133 (824)
T ss_pred             CcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhc-----------------------------------C
Confidence             24444443333345566543322      35679999999996                                   2


Q ss_pred             hhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          326 KVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       326 ~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ....+.||+.|+..    ....+||++|+.+++|-++|+.  |+ .++.|..++.++...+++..+.
T Consensus       134 ~~a~NaLLK~LEEp----P~~~~fIl~tt~~~kLl~TIrS--Rc-~~v~F~~l~~~~l~~~L~~il~  193 (824)
T PRK07764        134 PQGFNALLKIVEEP----PEHLKFIFATTEPDKVIGTIRS--RT-HHYPFRLVPPEVMRGYLERICA  193 (824)
T ss_pred             HHHHHHHHHHHhCC----CCCeEEEEEeCChhhhhHHHHh--he-eEEEeeCCCHHHHHHHHHHHHH
Confidence            23567899998864    3557888888999999999998  87 6899999999998888887664

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.60  E-value=7.1e-15  Score=162.74  Aligned_cols=147  Identities=18%  Similarity=0.332  Sum_probs=113.4

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc------------------------E
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD------------------------V  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~------------------------i  254 (504)
                      +|.+|+.+++++..++.|...+     +..||||||||||||++|+++|+.+++.                        +
T Consensus        11 RP~tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dv   90 (944)
T PRK14949         11 RPATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDL   90 (944)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceE
Confidence            5899999999999998888777     5569999999999999999999999763                        1


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++..+......+|.+....      ....|+||||+|.+                                   +...
T Consensus        91 iEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~L-----------------------------------T~eA  135 (944)
T PRK14949         91 IEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHML-----------------------------------SRSS  135 (944)
T ss_pred             EEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhc-----------------------------------CHHH
Confidence            223332212334566555433      24579999999986                                   2447


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ++.||..|+..    .+.+++|++|+.+.+|.++|+.  |+ .++.|..++.++....+++.+.
T Consensus       136 qNALLKtLEEP----P~~vrFILaTTe~~kLl~TIlS--RC-q~f~fkpLs~eEI~~~L~~il~  192 (944)
T PRK14949        136 FNALLKTLEEP----PEHVKFLLATTDPQKLPVTVLS--RC-LQFNLKSLTQDEIGTQLNHILT  192 (944)
T ss_pred             HHHHHHHHhcc----CCCeEEEEECCCchhchHHHHH--hh-eEEeCCCCCHHHHHHHHHHHHH
Confidence            78999999853    3457788888889999999999  88 7899999999988888777654

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.60  E-value=6.3e-15  Score=160.70  Aligned_cols=146  Identities=20%  Similarity=0.330  Sum_probs=116.3

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i  254 (504)
                      +|.+|+++++++..++.+...+     +..|||+||||||||++|+++|+.+++                        ++
T Consensus        11 RP~~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~   90 (647)
T PRK07994         11 RPQTFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDL   90 (647)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCc
Confidence            6899999999999999888888     445899999999999999999999876                        34


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++..+-...+.++.+....      ...-|+||||+|.+                                   +...
T Consensus        91 ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~L-----------------------------------s~~a  135 (647)
T PRK07994         91 IEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHML-----------------------------------SRHS  135 (647)
T ss_pred             eeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhC-----------------------------------CHHH
Confidence            455544323345666665543      24579999999986                                   2346


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .+.||..|+.-    .+.++||++|+.+++|.+.++.  |+ .++.|..++.++....+++.+
T Consensus       136 ~NALLKtLEEP----p~~v~FIL~Tt~~~kLl~TI~S--RC-~~~~f~~Ls~~ei~~~L~~il  191 (647)
T PRK07994        136 FNALLKTLEEP----PEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRQQLEHIL  191 (647)
T ss_pred             HHHHHHHHHcC----CCCeEEEEecCCccccchHHHh--hh-eEeeCCCCCHHHHHHHHHHHH
Confidence            78899988753    3557788888889999999999  87 799999999999888887765

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.60  E-value=4.4e-15  Score=148.77  Aligned_cols=151  Identities=17%  Similarity=0.237  Sum_probs=107.3

Q ss_pred             ccccChhHHHHHHHhh-------------------cccccccCCCCCcHHHHHHHHHHhcC-------CcEEEEeccccC
Q 037859          210 TLAMETKKKEEIKKDL-------------------KKGYLLYGPPGTGKSTMIAAMANFLN-------YDVYDLELTTVQ  263 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l-------------------~rg~LL~GPpGtGKTsla~aiA~~l~-------~~i~~l~~~~~~  263 (504)
                      .+++-+++|++|.+..                   ..++||+||||||||++|+++|..+.       -+++.+++..+.
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            4666677777665532                   23689999999999999999998763       257777654431


Q ss_pred             ------ChHHHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhc
Q 037859          264 ------DNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID  337 (504)
Q Consensus       264 ------~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD  337 (504)
                            +...++.+|..+ .++||||||+|.+..   .+                       ............|+..|+
T Consensus       103 ~~~~g~~~~~~~~~~~~a-~~gvL~iDEi~~L~~---~~-----------------------~~~~~~~~~~~~Ll~~le  155 (284)
T TIGR02880       103 GQYIGHTAPKTKEILKRA-MGGVLFIDEAYYLYR---PD-----------------------NERDYGQEAIEILLQVME  155 (284)
T ss_pred             HhhcccchHHHHHHHHHc-cCcEEEEechhhhcc---CC-----------------------CccchHHHHHHHHHHHHh
Confidence                  234455666654 569999999998631   10                       011234456778888887


Q ss_pred             CccccCCCceEEEEecCCC--C---CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          338 GLWSASGEERIIVFTTNYV--D---KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       338 g~~~~~~~~~ivI~tTN~~--e---~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      ..    ..++++|++++..  +   .++|+|.+  ||+.+|+|+.++.+++..|+++++..
T Consensus       156 ~~----~~~~~vI~a~~~~~~~~~~~~np~L~s--R~~~~i~fp~l~~edl~~I~~~~l~~  210 (284)
T TIGR02880       156 NQ----RDDLVVILAGYKDRMDSFFESNPGFSS--RVAHHVDFPDYSEAELLVIAGLMLKE  210 (284)
T ss_pred             cC----CCCEEEEEeCCcHHHHHHHhhCHHHHh--hCCcEEEeCCcCHHHHHHHHHHHHHH
Confidence            43    3456777776532  3   25899999  99999999999999999999999854

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.

>PRK04195 replication factor C large subunit; Provisional

Probab=99.59  E-value=1.2e-14  Score=156.28  Aligned_cols=150  Identities=21%  Similarity=0.346  Sum_probs=115.8

Q ss_pred             CCCccccccccChhHHHHHHHhh--------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHh
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL--------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLID  274 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l--------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~  274 (504)
                      ..|.+|+.++++++.++.+...+        ++++|||||||||||++|+++|++++++++.++.+.......++.+...
T Consensus         8 yrP~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~~~~i~~~i~~   87 (482)
T PRK04195          8 YRPKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTADVIERVAGE   87 (482)
T ss_pred             cCCCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccccccHHHHHHHHHH
Confidence            46899999999999999888876        4679999999999999999999999999999998877665666665543


Q ss_pred             c--------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCc
Q 037859          275 T--------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEE  346 (504)
Q Consensus       275 ~--------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~  346 (504)
                      .        ..+.||+|||+|.+..   .                            .....+..|++.++..      .
T Consensus        88 ~~~~~sl~~~~~kvIiIDEaD~L~~---~----------------------------~d~~~~~aL~~~l~~~------~  130 (482)
T PRK04195         88 AATSGSLFGARRKLILLDEVDGIHG---N----------------------------EDRGGARAILELIKKA------K  130 (482)
T ss_pred             hhccCcccCCCCeEEEEecCccccc---c----------------------------cchhHHHHHHHHHHcC------C
Confidence            3        1578999999998631   0                            0112345666666521      2


Q ss_pred             eEEEEecCCCCCCCh-hhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          347 RIIVFTTNYVDKLDP-ALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       347 ~ivI~tTN~~e~Ld~-ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ..+|++||.+..+++ .|.+  |+ ..|.|+.|+.+++..+++..+.
T Consensus       131 ~~iIli~n~~~~~~~k~Lrs--r~-~~I~f~~~~~~~i~~~L~~i~~  174 (482)
T PRK04195        131 QPIILTANDPYDPSLRELRN--AC-LMIEFKRLSTRSIVPVLKRICR  174 (482)
T ss_pred             CCEEEeccCccccchhhHhc--cc-eEEEecCCCHHHHHHHHHHHHH
Confidence            357778898888887 5555  55 6899999999999888887764

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.59  E-value=7.4e-15  Score=159.64  Aligned_cols=148  Identities=19%  Similarity=0.330  Sum_probs=116.4

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc------------------------E
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD------------------------V  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~------------------------i  254 (504)
                      +|.+|+++++++..++.|...+     +.+|||+||||||||++|+++|+.+++.                        +
T Consensus        11 RP~tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~Dv   90 (709)
T PRK08691         11 RPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDL   90 (709)
T ss_pred             CCCCHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccce
Confidence            6899999999999999888887     5679999999999999999999987642                        3


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++..+-.+...++.++...      ....|+||||+|.+                                   +...
T Consensus        91 lEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~L-----------------------------------s~~A  135 (709)
T PRK08691         91 LEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHML-----------------------------------SKSA  135 (709)
T ss_pred             EEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECcccc-----------------------------------CHHH
Confidence            444444334455677776543      34679999999975                                   1235


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      ++.||..|+..    .+.+++|++||.+.++.+.++.  |+ ..+.|..++.++....++..+..
T Consensus       136 ~NALLKtLEEP----p~~v~fILaTtd~~kL~~TIrS--RC-~~f~f~~Ls~eeI~~~L~~Il~k  193 (709)
T PRK08691        136 FNAMLKTLEEP----PEHVKFILATTDPHKVPVTVLS--RC-LQFVLRNMTAQQVADHLAHVLDS  193 (709)
T ss_pred             HHHHHHHHHhC----CCCcEEEEEeCCccccchHHHH--HH-hhhhcCCCCHHHHHHHHHHHHHH
Confidence            67888888753    3457888899999999999987  88 68899999999988888777654

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.59  E-value=5.2e-15  Score=167.76  Aligned_cols=152  Identities=20%  Similarity=0.277  Sum_probs=112.7

Q ss_pred             CCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCC-----
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQD-----  264 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~-----  264 (504)
                      .|..++.+++.++...+++..+    +.+.+|+||||||||++|+++|..+          +.+++.++++.+..     
T Consensus       182 r~~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~  261 (852)
T TIGR03345       182 REGKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVK  261 (852)
T ss_pred             cCCCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccc
Confidence            5778999999999888888876    5679999999999999999999876          35688888876531     


Q ss_pred             ---hHHHHHHHHhc---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          265 ---NSELRSLLIDT---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       265 ---~~~l~~l~~~~---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                         ..+++.++.+.   ..++||||||||.++...+.                        .+..   ...+-|+..+  
T Consensus       262 ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~------------------------~~~~---d~~n~Lkp~l--  312 (852)
T TIGR03345       262 GEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQ------------------------AGQG---DAANLLKPAL--  312 (852)
T ss_pred             hHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCc------------------------cccc---cHHHHhhHHh--
Confidence               14677788765   35899999999998531110                        0111   1112233332  


Q ss_pred             ccccCCCceEEEEecCCCCC-----CChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          339 LWSASGEERIIVFTTNYVDK-----LDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e~-----Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                          ..+.+.+|+||+..+.     +||||.|  ||. .|.++.|+.++...|++.+.
T Consensus       313 ----~~G~l~~IgaTT~~e~~~~~~~d~AL~r--Rf~-~i~v~eps~~~~~~iL~~~~  363 (852)
T TIGR03345       313 ----ARGELRTIAATTWAEYKKYFEKDPALTR--RFQ-VVKVEEPDEETAIRMLRGLA  363 (852)
T ss_pred             ----hCCCeEEEEecCHHHHhhhhhccHHHHH--hCe-EEEeCCCCHHHHHHHHHHHH
Confidence                2466889999987543     8999999  995 89999999999999976554

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.59  E-value=3.9e-15  Score=169.22  Aligned_cols=153  Identities=19%  Similarity=0.286  Sum_probs=115.7

Q ss_pred             CCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCC-----
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQD-----  264 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~-----  264 (504)
                      .|..++.+++.+...+++++-|    +..++|+||||||||++|+++|..+          +++++.++++.+..     
T Consensus       173 r~~~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~~~~  252 (857)
T PRK10865        173 EQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYR  252 (857)
T ss_pred             hcCCCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhccchh
Confidence            4677999999999888888877    5579999999999999999999987          78999998887531     


Q ss_pred             ---hHHHHHHHHhc---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          265 ---NSELRSLLIDT---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       265 ---~~~l~~l~~~~---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                         ...++.+|...   ..++||||||||.++.   .+.                     ..+.    ...+.+|...  
T Consensus       253 g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~---~~~---------------------~~~~----~d~~~~lkp~--  302 (857)
T PRK10865        253 GEFEERLKGVLNDLAKQEGNVILFIDELHTMVG---AGK---------------------ADGA----MDAGNMLKPA--  302 (857)
T ss_pred             hhhHHHHHHHHHHHHHcCCCeEEEEecHHHhcc---CCC---------------------Cccc----hhHHHHhcch--
Confidence               23577777653   4689999999999852   110                     0011    1123333221  


Q ss_pred             ccccCCCceEEEEecCCCCC-----CChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          339 LWSASGEERIIVFTTNYVDK-----LDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e~-----Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                         ...+++.+|+||+..+.     +|+||.|  ||+ .|.++.|+.+++..|++.+..
T Consensus       303 ---l~~g~l~~IgaTt~~e~r~~~~~d~al~r--Rf~-~i~v~eP~~~~~~~iL~~l~~  355 (857)
T PRK10865        303 ---LARGELHCVGATTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAILRGLKE  355 (857)
T ss_pred             ---hhcCCCeEEEcCCCHHHHHHhhhcHHHHh--hCC-EEEeCCCCHHHHHHHHHHHhh
Confidence               12467899999998874     8999999  997 689999999999999887653

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.58  E-value=1.7e-14  Score=156.83  Aligned_cols=147  Identities=20%  Similarity=0.368  Sum_probs=116.4

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcC------------------------CcE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLN------------------------YDV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~------------------------~~i  254 (504)
                      +|.+|+.+++++..++.+...+     ++.||||||+|||||++|+.+|+.++                        .++
T Consensus        11 rP~~f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~dv   90 (559)
T PRK05563         11 RPQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMDV   90 (559)
T ss_pred             CCCcHHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCCe
Confidence            6899999999999999888887     55699999999999999999999875                        345


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++..+-.+.+.++.+....      ...-|++|||+|.+-                                   ...
T Consensus        91 ~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt-----------------------------------~~a  135 (559)
T PRK05563         91 IEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLS-----------------------------------TGA  135 (559)
T ss_pred             EEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCC-----------------------------------HHH
Confidence            666665444556677766553      246799999999861                                   235


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .+.||..++..    +..+++|++|+.+++|++++++  |+ ..+.|..++.++....++..+.
T Consensus       136 ~naLLKtLEep----p~~~ifIlatt~~~ki~~tI~S--Rc-~~~~f~~~~~~ei~~~L~~i~~  192 (559)
T PRK05563        136 FNALLKTLEEP----PAHVIFILATTEPHKIPATILS--RC-QRFDFKRISVEDIVERLKYILD  192 (559)
T ss_pred             HHHHHHHhcCC----CCCeEEEEEeCChhhCcHHHHh--Hh-eEEecCCCCHHHHHHHHHHHHH
Confidence            77888888754    3457888888889999999998  88 5789999999888887776553

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.58  E-value=1.5e-14  Score=147.17  Aligned_cols=147  Identities=20%  Similarity=0.213  Sum_probs=110.4

Q ss_pred             cCCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHH----
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLL----  272 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~----  272 (504)
                      -..|.+|+.++++++.++.+...+     +..+|||||||+|||++++++|++++.+++.+++.. .....++..+    
T Consensus        14 kyrP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~-~~~~~i~~~l~~~~   92 (316)
T PHA02544         14 KYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD-CRIDFVRNRLTRFA   92 (316)
T ss_pred             ccCCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc-ccHHHHHHHHHHHH
Confidence            346899999999999999998887     445777999999999999999999999999998887 3233333322    


Q ss_pred             Hhc---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEE
Q 037859          273 IDT---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERII  349 (504)
Q Consensus       273 ~~~---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~iv  349 (504)
                      ...   ..+.||+|||+|.+-    .                           .   .....|...++..    .....+
T Consensus        93 ~~~~~~~~~~vliiDe~d~l~----~---------------------------~---~~~~~L~~~le~~----~~~~~~  134 (316)
T PHA02544         93 STVSLTGGGKVIIIDEFDRLG----L---------------------------A---DAQRHLRSFMEAY----SKNCSF  134 (316)
T ss_pred             HhhcccCCCeEEEEECccccc----C---------------------------H---HHHHHHHHHHHhc----CCCceE
Confidence            111   357899999999851    0                           0   1122334445543    234678


Q ss_pred             EEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHh
Q 037859          350 VFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       350 I~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~  390 (504)
                      |+|||.+..++++|.+  |+ ..+.++.|+.+++..+++.+
T Consensus       135 Ilt~n~~~~l~~~l~s--R~-~~i~~~~p~~~~~~~il~~~  172 (316)
T PHA02544        135 IITANNKNGIIEPLRS--RC-RVIDFGVPTKEEQIEMMKQM  172 (316)
T ss_pred             EEEcCChhhchHHHHh--hc-eEEEeCCCCHHHHHHHHHHH
Confidence            8999999999999999  88 47899999999988776654

>PLN03025 replication factor C subunit; Provisional

Probab=99.58  E-value=1.6e-14  Score=147.31  Aligned_cols=148  Identities=17%  Similarity=0.203  Sum_probs=108.0

Q ss_pred             CCCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhcCC-----cEEEEeccccCChHHHHHHHH
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLNY-----DVYDLELTTVQDNSELRSLLI  273 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~~-----~i~~l~~~~~~~~~~l~~l~~  273 (504)
                      .+|.+|++++++++..+.+...+    ...+|||||||||||++|+++|+++..     .+..++.+...+...++..+.
T Consensus         7 yrP~~l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~~vr~~i~   86 (319)
T PLN03025          7 YRPTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGIDVVRNKIK   86 (319)
T ss_pred             cCCCCHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHHHHHHHHH
Confidence            47999999999999888877666    234899999999999999999999732     345555554434344554432


Q ss_pred             h---c------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCC
Q 037859          274 D---T------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG  344 (504)
Q Consensus       274 ~---~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~  344 (504)
                      .   .      ....|++|||+|.+.                                   ....+.|+..|+..    +
T Consensus        87 ~~~~~~~~~~~~~~kviiiDE~d~lt-----------------------------------~~aq~aL~~~lE~~----~  127 (319)
T PLN03025         87 MFAQKKVTLPPGRHKIVILDEADSMT-----------------------------------SGAQQALRRTMEIY----S  127 (319)
T ss_pred             HHHhccccCCCCCeEEEEEechhhcC-----------------------------------HHHHHHHHHHHhcc----c
Confidence            2   1      246799999999862                                   11345566666543    2


Q ss_pred             CceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       345 ~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ....+|++||....+.++|..  |+ ..+.|+.|+.++....++....
T Consensus       128 ~~t~~il~~n~~~~i~~~L~S--Rc-~~i~f~~l~~~~l~~~L~~i~~  172 (319)
T PLN03025        128 NTTRFALACNTSSKIIEPIQS--RC-AIVRFSRLSDQEILGRLMKVVE  172 (319)
T ss_pred             CCceEEEEeCCccccchhHHH--hh-hcccCCCCCHHHHHHHHHHHHH
Confidence            234678899999999999999  77 5799999999988887776653

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.58  E-value=2.1e-14  Score=155.74  Aligned_cols=147  Identities=23%  Similarity=0.381  Sum_probs=114.6

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC--------------------------
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY--------------------------  252 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~--------------------------  252 (504)
                      +|.+|+++++++..++.|...+     +..||||||+|||||++|+++|+.+++                          
T Consensus         8 RP~~f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~   87 (584)
T PRK14952          8 RPATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSI   87 (584)
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCc
Confidence            6899999999999999988888     445999999999999999999998763                          


Q ss_pred             cEEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchh
Q 037859          253 DVYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSK  326 (504)
Q Consensus       253 ~i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  326 (504)
                      +++.++.++..+-+.++.+....      ...-|++|||+|.+                                   +.
T Consensus        88 dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~L-----------------------------------t~  132 (584)
T PRK14952         88 DVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMV-----------------------------------TT  132 (584)
T ss_pred             eEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcC-----------------------------------CH
Confidence            34455554433445565554332      35679999999986                                   12


Q ss_pred             hHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          327 VTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       327 ~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ...+.||..|+..    .+.+++|++|+.+++|.++|+.  |+ .+++|..++.++....+..++.
T Consensus       133 ~A~NALLK~LEEp----p~~~~fIL~tte~~kll~TI~S--Rc-~~~~F~~l~~~~i~~~L~~i~~  191 (584)
T PRK14952        133 AGFNALLKIVEEP----PEHLIFIFATTEPEKVLPTIRS--RT-HHYPFRLLPPRTMRALIARICE  191 (584)
T ss_pred             HHHHHHHHHHhcC----CCCeEEEEEeCChHhhHHHHHH--hc-eEEEeeCCCHHHHHHHHHHHHH
Confidence            3677889888854    3568888888989999999999  86 6899999999888877777654

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.57  E-value=4.2e-14  Score=146.09  Aligned_cols=148  Identities=21%  Similarity=0.399  Sum_probs=113.1

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i  254 (504)
                      .|.+|+.+++++..++.+...+     +..||||||||+|||++|+++|..+..                        ++
T Consensus         9 rp~~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~   88 (355)
T TIGR02397         9 RPQTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV   88 (355)
T ss_pred             CCCcHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE
Confidence            5889999999999999998877     456999999999999999999988742                        24


Q ss_pred             EEEeccccCChHHHHHHHHhcc------CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDTS------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~~------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++.........++.++..+.      .+.|++|||+|.+-                                   ...
T Consensus        89 ~~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~-----------------------------------~~~  133 (355)
T TIGR02397        89 IEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLS-----------------------------------KSA  133 (355)
T ss_pred             EEeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcC-----------------------------------HHH
Confidence            4444432233445666665542      45699999999851                                   124


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      .+.||..++..    ....++|++||.++.+.+++.+  |+ ..++|+.|+.++...+++.++..
T Consensus       134 ~~~Ll~~le~~----~~~~~lIl~~~~~~~l~~~l~s--r~-~~~~~~~~~~~~l~~~l~~~~~~  191 (355)
T TIGR02397       134 FNALLKTLEEP----PEHVVFILATTEPHKIPATILS--RC-QRFDFKRIPLEDIVERLKKILDK  191 (355)
T ss_pred             HHHHHHHHhCC----ccceeEEEEeCCHHHHHHHHHh--he-eEEEcCCCCHHHHHHHHHHHHHH
Confidence            67788888753    3457788888999999999998  88 57999999999999888876643

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.

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.57  E-value=2e-14  Score=156.51  Aligned_cols=147  Identities=18%  Similarity=0.301  Sum_probs=114.9

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC--------------------------
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY--------------------------  252 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~--------------------------  252 (504)
                      +|.+|+++++++..++.|...+     +..||||||+|||||++|+++|+.+++                          
T Consensus        11 RP~~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g   90 (618)
T PRK14951         11 RPRSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSG   90 (618)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcC
Confidence            6899999999999999888887     556899999999999999999999875                          


Q ss_pred             ---cEEEEeccccCChHHHHHHHHhcc------CCeEEEEecccccccccccccccccccccccccCcccccccccCCCc
Q 037859          253 ---DVYDLELTTVQDNSELRSLLIDTS------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSK  323 (504)
Q Consensus       253 ---~i~~l~~~~~~~~~~l~~l~~~~~------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  323 (504)
                         +++.++..+-.+.+.++.++....      ..-|++|||+|.+                                  
T Consensus        91 ~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~L----------------------------------  136 (618)
T PRK14951         91 RFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHML----------------------------------  136 (618)
T ss_pred             CCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhC----------------------------------
Confidence               244454443334456777776532      3469999999986                                  


Q ss_pred             chhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          324 KSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       324 ~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                       +....+.||..|+..    .+..++|++|+.+.++.+.++.  |+ .+++|..++.++....++..+.
T Consensus       137 -s~~a~NaLLKtLEEP----P~~~~fIL~Ttd~~kil~TIlS--Rc-~~~~f~~Ls~eei~~~L~~i~~  197 (618)
T PRK14951        137 -TNTAFNAMLKTLEEP----PEYLKFVLATTDPQKVPVTVLS--RC-LQFNLRPMAPETVLEHLTQVLA  197 (618)
T ss_pred             -CHHHHHHHHHhcccC----CCCeEEEEEECCchhhhHHHHH--hc-eeeecCCCCHHHHHHHHHHHHH
Confidence             223577888888753    3457788888889999999998  88 7899999999888877776653

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.57  E-value=1.5e-14  Score=155.74  Aligned_cols=146  Identities=17%  Similarity=0.332  Sum_probs=113.2

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i  254 (504)
                      +|.+|+++++++..++.+...+     +++|||+||||||||++|+++|+.+.+                        ++
T Consensus        11 RP~~F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~Di   90 (605)
T PRK05896         11 RPHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSVDI   90 (605)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCCce
Confidence            6899999999999999888877     566999999999999999999998853                        44


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++..+..+...++.+....      ....|++|||+|.+-                                   ...
T Consensus        91 ieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt-----------------------------------~~A  135 (605)
T PRK05896         91 VELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLS-----------------------------------TSA  135 (605)
T ss_pred             EEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCC-----------------------------------HHH
Confidence            555544333445566665433      245699999999851                                   124


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .+.||..|+..    ++..++|++|+.+..|.+++++  |+ ..++|..++.++....++..+
T Consensus       136 ~NaLLKtLEEP----p~~tvfIL~Tt~~~KLl~TI~S--Rc-q~ieF~~Ls~~eL~~~L~~il  191 (605)
T PRK05896        136 WNALLKTLEEP----PKHVVFIFATTEFQKIPLTIIS--RC-QRYNFKKLNNSELQELLKSIA  191 (605)
T ss_pred             HHHHHHHHHhC----CCcEEEEEECCChHhhhHHHHh--hh-hhcccCCCCHHHHHHHHHHHH
Confidence            56788888753    3457888888889999999999  87 479999999988887777654

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.57  E-value=2.7e-14  Score=153.14  Aligned_cols=147  Identities=23%  Similarity=0.406  Sum_probs=113.1

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC-----------------------cEE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY-----------------------DVY  255 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~-----------------------~i~  255 (504)
                      .|.+|+++++++..++.+...+     +..||||||||||||++|+++|+.+.+                       +++
T Consensus         9 RP~~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~   88 (504)
T PRK14963          9 RPITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVL   88 (504)
T ss_pred             CCCCHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceE
Confidence            6899999999999999888887     445799999999999999999998853                       255


Q ss_pred             EEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHH
Q 037859          256 DLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTL  329 (504)
Q Consensus       256 ~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  329 (504)
                      .++.....+...++.+....      ..+.||||||+|.+                                   +...+
T Consensus        89 el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~l-----------------------------------s~~a~  133 (504)
T PRK14963         89 EIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMM-----------------------------------SKSAF  133 (504)
T ss_pred             EecccccCCHHHHHHHHHHHhhccccCCCeEEEEECcccc-----------------------------------CHHHH
Confidence            55554333444555553322      35679999999974                                   12357


Q ss_pred             HHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          330 SGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       330 s~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      +.||..|+..    ....++|++||.++.+.+++.+  |+ .++.|..++.++....++..+.
T Consensus       134 naLLk~LEep----~~~t~~Il~t~~~~kl~~~I~S--Rc-~~~~f~~ls~~el~~~L~~i~~  189 (504)
T PRK14963        134 NALLKTLEEP----PEHVIFILATTEPEKMPPTILS--RT-QHFRFRRLTEEEIAGKLRRLLE  189 (504)
T ss_pred             HHHHHHHHhC----CCCEEEEEEcCChhhCChHHhc--ce-EEEEecCCCHHHHHHHHHHHHH
Confidence            7888888753    3457888889999999999999  87 5899999999998888776653

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.57  E-value=2.4e-14  Score=153.97  Aligned_cols=146  Identities=20%  Similarity=0.320  Sum_probs=111.8

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i  254 (504)
                      +|.+|+++++++..++.+...+     +..|||+||||||||++|+++|+.+++                        ++
T Consensus        11 RP~~f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dl   90 (546)
T PRK14957         11 RPQSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDL   90 (546)
T ss_pred             CcCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCce
Confidence            6899999999999998888887     345999999999999999999998864                        45


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++...-.+..+++.++...      ...-|++|||+|.+                                   +...
T Consensus        91 ieidaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~l-----------------------------------s~~a  135 (546)
T PRK14957         91 IEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHML-----------------------------------SKQS  135 (546)
T ss_pred             EEeecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhc-----------------------------------cHHH
Confidence            555543333344555555432      25679999999985                                   2236


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .+.||..|+..    ++.+++|++|+.+..+.++++.  |+ ..++|..++.++....++..+
T Consensus       136 ~naLLK~LEep----p~~v~fIL~Ttd~~kil~tI~S--Rc-~~~~f~~Ls~~eI~~~L~~il  191 (546)
T PRK14957        136 FNALLKTLEEP----PEYVKFILATTDYHKIPVTILS--RC-IQLHLKHISQADIKDQLKIIL  191 (546)
T ss_pred             HHHHHHHHhcC----CCCceEEEEECChhhhhhhHHH--he-eeEEeCCCCHHHHHHHHHHHH
Confidence            67888888853    3456778777778889989888  88 789999999988877776644

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.57  E-value=1.3e-14  Score=156.68  Aligned_cols=146  Identities=18%  Similarity=0.321  Sum_probs=114.5

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i  254 (504)
                      +|.+|+++++++..++.+...+     +..|||+||||||||++|+++|+.+++                        ++
T Consensus        11 rP~~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~   90 (527)
T PRK14969         11 RPKSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDL   90 (527)
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            5899999999999999888877     567999999999999999999999865                        34


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++...-...+.++.++...      ....|++|||+|.+                                   +...
T Consensus        91 ~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~l-----------------------------------s~~a  135 (527)
T PRK14969         91 IEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHML-----------------------------------SKSA  135 (527)
T ss_pred             eEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccC-----------------------------------CHHH
Confidence            455544333445677766544      24579999999986                                   1235


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .+.||..|+..    .+..++|++|+.++++.+.++.  |+ ..++|..++.++....+...+
T Consensus       136 ~naLLK~LEep----p~~~~fIL~t~d~~kil~tI~S--Rc-~~~~f~~l~~~~i~~~L~~il  191 (527)
T PRK14969        136 FNAMLKTLEEP----PEHVKFILATTDPQKIPVTVLS--RC-LQFNLKQMPPPLIVSHLQHIL  191 (527)
T ss_pred             HHHHHHHHhCC----CCCEEEEEEeCChhhCchhHHH--HH-HHHhcCCCCHHHHHHHHHHHH
Confidence            67889988764    3457888888888899988888  87 789999999998887776665

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.57  E-value=2.3e-14  Score=157.16  Aligned_cols=147  Identities=22%  Similarity=0.382  Sum_probs=113.1

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc---------------------EEE
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD---------------------VYD  256 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~---------------------i~~  256 (504)
                      .+|.+|+++++++..++.+...+     +.+||||||||||||++|+++|..+.+.                     ++.
T Consensus        12 yRP~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvie   91 (725)
T PRK07133         12 YRPKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIE   91 (725)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEE
Confidence            36899999999999998888887     5669999999999999999999988652                     233


Q ss_pred             EeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHH
Q 037859          257 LELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLS  330 (504)
Q Consensus       257 l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls  330 (504)
                      ++..+-.+...++.+....      ....|++|||+|.+-                                   ...++
T Consensus        92 idaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT-----------------------------------~~A~N  136 (725)
T PRK07133         92 MDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLS-----------------------------------KSAFN  136 (725)
T ss_pred             EeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCC-----------------------------------HHHHH
Confidence            3332212344566665543      256799999999861                                   23577


Q ss_pred             HHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          331 GLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       331 ~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .||..|+..    ++.+++|++|+.++.|.+++++  |+ .++.|..++.++....+...+
T Consensus       137 ALLKtLEEP----P~~tifILaTte~~KLl~TI~S--Rc-q~ieF~~L~~eeI~~~L~~il  190 (725)
T PRK07133        137 ALLKTLEEP----PKHVIFILATTEVHKIPLTILS--RV-QRFNFRRISEDEIVSRLEFIL  190 (725)
T ss_pred             HHHHHhhcC----CCceEEEEEcCChhhhhHHHHh--hc-eeEEccCCCHHHHHHHHHHHH
Confidence            889888854    3457888888899999999999  88 589999999998887777654

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

Probab=99.56  E-value=4.2e-14  Score=135.74  Aligned_cols=161  Identities=22%  Similarity=0.321  Sum_probs=129.7

Q ss_pred             ceeeecCCCccccccccChhHHHHHHHhh--------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCCh
Q 037859          197 WSHVFFEHPATFDTLAMETKKKEEIKKDL--------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDN  265 (504)
Q Consensus       197 w~~~~~~~p~~f~~~~~~~~~k~~i~~~l--------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~  265 (504)
                      ...++-.+|..++.+.+-+.+|+.|++-.        ...+||||+.||||||+++|+.+++   |+.++.+.-..+.+-
T Consensus        15 l~~i~~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~l   94 (249)
T PF05673_consen   15 LEPIKHPDPIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGDL   94 (249)
T ss_pred             EEecCCCCCCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhccH
Confidence            33344445567999999999999998776        5679999999999999999999876   677888888888888


Q ss_pred             HHHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCC
Q 037859          266 SELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGE  345 (504)
Q Consensus       266 ~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~  345 (504)
                      ..|...+...+.+-|||+||+-  |+                                ........|-..|||--...++
T Consensus        95 ~~l~~~l~~~~~kFIlf~DDLs--Fe--------------------------------~~d~~yk~LKs~LeGgle~~P~  140 (249)
T PF05673_consen   95 PELLDLLRDRPYKFILFCDDLS--FE--------------------------------EGDTEYKALKSVLEGGLEARPD  140 (249)
T ss_pred             HHHHHHHhcCCCCEEEEecCCC--CC--------------------------------CCcHHHHHHHHHhcCccccCCC
Confidence            8888888888899999999864  21                                1122457778888987777788


Q ss_pred             ceEEEEecCCCCCCCh-----------------------hhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          346 ERIIVFTTNYVDKLDP-----------------------ALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       346 ~~ivI~tTN~~e~Ld~-----------------------ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      +++|.+|+|+...+++                       +|-.  ||..+|.|..|+.++..+|.++|+..
T Consensus       141 NvliyATSNRRHLv~E~~~d~~~~~~~eih~~d~~eEklSLsD--RFGL~l~F~~~~q~~YL~IV~~~~~~  209 (249)
T PF05673_consen  141 NVLIYATSNRRHLVPESFSDREDIQDDEIHPSDTIEEKLSLSD--RFGLWLSFYPPDQEEYLAIVRHYAER  209 (249)
T ss_pred             cEEEEEecchhhccchhhhhccCCCccccCcchHHHHHHhHHH--hCCcEEEecCCCHHHHHHHHHHHHHH
Confidence            8999999997654433                       3445  99999999999999999999999853

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.56  E-value=3.4e-14  Score=149.92  Aligned_cols=145  Identities=24%  Similarity=0.365  Sum_probs=109.2

Q ss_pred             CCCccccccccChhHHHH---HHHhh----cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhc
Q 037859          203 EHPATFDTLAMETKKKEE---IKKDL----KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDT  275 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~---i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~  275 (504)
                      -+|++|++++++++....   +...+    ...+||+||||||||++|+++|+.++.+++.++.... +...++.++...
T Consensus         6 ~RP~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~-~~~~ir~ii~~~   84 (413)
T PRK13342          6 MRPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTS-GVKDLREVIEEA   84 (413)
T ss_pred             hCCCCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccc-cHHHHHHHHHHH
Confidence            468999999999877433   55555    4568999999999999999999999999998887643 344566665544


Q ss_pred             ------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEE
Q 037859          276 ------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERII  349 (504)
Q Consensus       276 ------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~iv  349 (504)
                            ..+.||||||||.+.                                   ......||..++.      +.+++
T Consensus        85 ~~~~~~g~~~vL~IDEi~~l~-----------------------------------~~~q~~LL~~le~------~~iil  123 (413)
T PRK13342         85 RQRRSAGRRTILFIDEIHRFN-----------------------------------KAQQDALLPHVED------GTITL  123 (413)
T ss_pred             HHhhhcCCceEEEEechhhhC-----------------------------------HHHHHHHHHHhhc------CcEEE
Confidence                  267899999999862                                   1233456666653      23566


Q ss_pred             EEec--CCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          350 VFTT--NYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       350 I~tT--N~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      |++|  |....++++|++  |+ ..+.|+.++.++...+++..+.
T Consensus       124 I~att~n~~~~l~~aL~S--R~-~~~~~~~ls~e~i~~lL~~~l~  165 (413)
T PRK13342        124 IGATTENPSFEVNPALLS--RA-QVFELKPLSEEDIEQLLKRALE  165 (413)
T ss_pred             EEeCCCChhhhccHHHhc--cc-eeeEeCCCCHHHHHHHHHHHHH
Confidence            6654  445689999999  88 6899999999999999888753

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.55  E-value=4.2e-14  Score=153.07  Aligned_cols=148  Identities=18%  Similarity=0.295  Sum_probs=112.4

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc------------------------
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD------------------------  253 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~------------------------  253 (504)
                      .+|.+|+++++++..++.|...+     +..|||+||||||||++|+++|+.+++.                        
T Consensus        10 yRP~sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpD   89 (624)
T PRK14959         10 YRPQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVD   89 (624)
T ss_pred             hCCCCHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCc
Confidence            36899999999999988888877     4569999999999999999999999753                        


Q ss_pred             EEEEeccccCChHHHHHHHHh---c---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhh
Q 037859          254 VYDLELTTVQDNSELRSLLID---T---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV  327 (504)
Q Consensus       254 i~~l~~~~~~~~~~l~~l~~~---~---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  327 (504)
                      ++.++...-..-+.++.+...   .   ....||||||+|.+                                   ...
T Consensus        90 v~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~L-----------------------------------t~~  134 (624)
T PRK14959         90 VVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHML-----------------------------------TRE  134 (624)
T ss_pred             eEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhC-----------------------------------CHH
Confidence            555554322233444443322   2   25679999999986                                   123


Q ss_pred             HHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          328 TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       328 ~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ..+.||..|+..    ....++|++||.+.++.+.|++  |+ .+|+|..++.++...+++..+.
T Consensus       135 a~naLLk~LEEP----~~~~ifILaTt~~~kll~TI~S--Rc-q~i~F~pLs~~eL~~~L~~il~  192 (624)
T PRK14959        135 AFNALLKTLEEP----PARVTFVLATTEPHKFPVTIVS--RC-QHFTFTRLSEAGLEAHLTKVLG  192 (624)
T ss_pred             HHHHHHHHhhcc----CCCEEEEEecCChhhhhHHHHh--hh-hccccCCCCHHHHHHHHHHHHH
Confidence            467888888753    2457889999999999999998  88 5889999999988887776543

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.55  E-value=7.7e-14  Score=145.06  Aligned_cols=147  Identities=17%  Similarity=0.352  Sum_probs=110.8

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------cEEEEeccccCChH
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------DVYDLELTTVQDNS  266 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------~i~~l~~~~~~~~~  266 (504)
                      +|.+|+++++++..++.+...+     +.+||||||||+|||++++++|+.++.            .++.++.....+..
T Consensus        12 rP~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~   91 (367)
T PRK14970         12 RPQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVD   91 (367)
T ss_pred             CCCcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHH
Confidence            6889999999999999888887     557999999999999999999998753            23334333323346


Q ss_pred             HHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          267 ELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       267 ~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                      .++.++..+      ..+.||+|||+|.+.                                   ...++.|+..++.. 
T Consensus        92 ~i~~l~~~~~~~p~~~~~kiviIDE~~~l~-----------------------------------~~~~~~ll~~le~~-  135 (367)
T PRK14970         92 DIRNLIDQVRIPPQTGKYKIYIIDEVHMLS-----------------------------------SAAFNAFLKTLEEP-  135 (367)
T ss_pred             HHHHHHHHHhhccccCCcEEEEEeChhhcC-----------------------------------HHHHHHHHHHHhCC-
Confidence            677776643      245799999999751                                   12467788877653 


Q ss_pred             ccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                         +...++|++||.+..+.+++.+  |+ ..++++.|+.++...++.....
T Consensus       136 ---~~~~~~Il~~~~~~kl~~~l~s--r~-~~v~~~~~~~~~l~~~l~~~~~  181 (367)
T PRK14970        136 ---PAHAIFILATTEKHKIIPTILS--RC-QIFDFKRITIKDIKEHLAGIAV  181 (367)
T ss_pred             ---CCceEEEEEeCCcccCCHHHHh--cc-eeEecCCccHHHHHHHHHHHHH
Confidence               2346778888888999999998  76 4689999999888877776543

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.55  E-value=2.9e-14  Score=155.77  Aligned_cols=146  Identities=17%  Similarity=0.324  Sum_probs=113.6

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc------------------------E
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD------------------------V  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~------------------------i  254 (504)
                      +|.+|+++++++..++.+...+     +..||||||||||||++|+++|+.+++.                        +
T Consensus        11 RP~~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d~   90 (576)
T PRK14965         11 RPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVDV   90 (576)
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCCe
Confidence            5899999999999999998887     5679999999999999999999998642                        4


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++..+-...++++.+....      ...-|++|||+|.+                                   +...
T Consensus        91 ~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~L-----------------------------------t~~a  135 (576)
T PRK14965         91 FEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHML-----------------------------------STNA  135 (576)
T ss_pred             eeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhC-----------------------------------CHHH
Confidence            445544333445666665443      24569999999986                                   1235


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .+.||..|+..    .+.+++|++||.+++|.+.++.  |+ .+++|..++.++....+...+
T Consensus       136 ~naLLk~LEep----p~~~~fIl~t~~~~kl~~tI~S--Rc-~~~~f~~l~~~~i~~~L~~i~  191 (576)
T PRK14965        136 FNALLKTLEEP----PPHVKFIFATTEPHKVPITILS--RC-QRFDFRRIPLQKIVDRLRYIA  191 (576)
T ss_pred             HHHHHHHHHcC----CCCeEEEEEeCChhhhhHHHHH--hh-hhhhcCCCCHHHHHHHHHHHH
Confidence            67899988853    3457888999999999999998  87 589999998888777666554

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.54  E-value=8.6e-14  Score=137.97  Aligned_cols=137  Identities=23%  Similarity=0.236  Sum_probs=97.0

Q ss_pred             HHHHHhh--cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHH---------------------------
Q 037859          219 EEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELR---------------------------  269 (504)
Q Consensus       219 ~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~---------------------------  269 (504)
                      ++++..+  .+.+||+||||||||++|+++|..+|.+++.+++..-....++.                           
T Consensus        12 ~~~l~~l~~g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (262)
T TIGR02640        12 SRALRYLKSGYPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDIVR   91 (262)
T ss_pred             HHHHHHHhcCCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcccc
Confidence            3444444  56799999999999999999999999999999887533222221                           


Q ss_pred             ------HHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc-cc
Q 037859          270 ------SLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW-SA  342 (504)
Q Consensus       270 ------~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~-~~  342 (504)
                            .++.....+.+|+|||||.+                                   +..+.+.|+..|+.-. ..
T Consensus        92 ~~~~~g~l~~A~~~g~~lllDEi~r~-----------------------------------~~~~q~~Ll~~Le~~~~~i  136 (262)
T TIGR02640        92 QNWVDNRLTLAVREGFTLVYDEFTRS-----------------------------------KPETNNVLLSVFEEGVLEL  136 (262)
T ss_pred             eeecCchHHHHHHcCCEEEEcchhhC-----------------------------------CHHHHHHHHHHhcCCeEEc
Confidence                  11122235679999999984                                   1235566666665311 00


Q ss_pred             -----------CCCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          343 -----------SGEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       343 -----------~~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                                 ...+..||+|+|...     .+++||++  || ..+.+++|+.++..+|++...+.
T Consensus       137 ~~~~~~~~~i~~~~~frvIaTsN~~~~~g~~~l~~aL~~--R~-~~i~i~~P~~~~e~~Il~~~~~~  200 (262)
T TIGR02640       137 PGKRGTSRYVDVHPEFRVIFTSNPVEYAGVHETQDALLD--RL-ITIFMDYPDIDTETAILRAKTDV  200 (262)
T ss_pred             cCCCCCCceEecCCCCEEEEeeCCccccceecccHHHHh--hc-EEEECCCCCHHHHHHHHHHhhCC
Confidence                       112456899999763     56999999  99 78999999999999999887643

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).

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.53  E-value=2.8e-14  Score=162.73  Aligned_cols=152  Identities=17%  Similarity=0.269  Sum_probs=112.5

Q ss_pred             CCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCC-----
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQD-----  264 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~-----  264 (504)
                      .|..++.+++.++..++++..+    ++..+|+||||||||++++++|..+          +++++.++++.+..     
T Consensus       168 ~~~~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~a~~~~~  247 (852)
T TIGR03346       168 REGKLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALIAGAKYR  247 (852)
T ss_pred             hCCCCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHhhcchhh
Confidence            5667899999998888888877    5668999999999999999999986          67899988776521     


Q ss_pred             ---hHHHHHHHHhc---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          265 ---NSELRSLLIDT---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       265 ---~~~l~~l~~~~---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                         ...++.+|...   ..++||||||||.++.   .+.                        .... .....+|..+  
T Consensus       248 g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~---~g~------------------------~~~~-~d~~~~Lk~~--  297 (852)
T TIGR03346       248 GEFEERLKAVLNEVTKSEGQIILFIDELHTLVG---AGK------------------------AEGA-MDAGNMLKPA--  297 (852)
T ss_pred             hhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhc---CCC------------------------Ccch-hHHHHHhchh--
Confidence               13567777654   3589999999999752   110                        0001 1122333322  


Q ss_pred             ccccCCCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          339 LWSASGEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                         ...+.+.+|++||..+     .+|+||.|  ||. .|.++.|+.+++..|++.+.
T Consensus       298 ---l~~g~i~~IgaTt~~e~r~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       298 ---LARGELHCIGATTLDEYRKYIEKDAALER--RFQ-PVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             ---hhcCceEEEEeCcHHHHHHHhhcCHHHHh--cCC-EEEeCCCCHHHHHHHHHHHH
Confidence               1245688999998765     37999999  996 68999999999999998764

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.52  E-value=1.1e-13  Score=148.06  Aligned_cols=149  Identities=21%  Similarity=0.339  Sum_probs=111.5

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------c
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------D  253 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~  253 (504)
                      .+|..|+.+++++...+.+...+     +..||||||||||||++|+.+|..+++                        +
T Consensus        10 yRP~~f~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d   89 (486)
T PRK14953         10 YRPKFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPD   89 (486)
T ss_pred             hCCCcHHHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCc
Confidence            36889999999999999888888     455999999999999999999998863                        2


Q ss_pred             EEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhh
Q 037859          254 VYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV  327 (504)
Q Consensus       254 i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  327 (504)
                      ++.++.++-.+...++.+....      ..+.|++|||+|.+-                                   ..
T Consensus        90 ~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt-----------------------------------~~  134 (486)
T PRK14953         90 LIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLT-----------------------------------KE  134 (486)
T ss_pred             EEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcC-----------------------------------HH
Confidence            4444443323334455544332      256799999999851                                   22


Q ss_pred             HHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          328 TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       328 ~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      ..+.||..++..    ....++|++|+.++.+++++.+  |+ ..+.|..++.++....++..+..
T Consensus       135 a~naLLk~LEep----p~~~v~Il~tt~~~kl~~tI~S--Rc-~~i~f~~ls~~el~~~L~~i~k~  193 (486)
T PRK14953        135 AFNALLKTLEEP----PPRTIFILCTTEYDKIPPTILS--RC-QRFIFSKPTKEQIKEYLKRICNE  193 (486)
T ss_pred             HHHHHHHHHhcC----CCCeEEEEEECCHHHHHHHHHH--hc-eEEEcCCCCHHHHHHHHHHHHHH
Confidence            456788887753    3446777778888899999998  87 47999999999998888876543

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

Probab=99.52  E-value=2.8e-14  Score=139.21  Aligned_cols=149  Identities=23%  Similarity=0.367  Sum_probs=105.9

Q ss_pred             ecCCCccccccccChhHHHHHHHhhcc----cccccCCCCCcHHHHHHHHHHhcCCc------EEEEeccccCC------
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDLKK----GYLLYGPPGTGKSTMIAAMANFLNYD------VYDLELTTVQD------  264 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l~r----g~LL~GPpGtGKTsla~aiA~~l~~~------i~~l~~~~~~~------  264 (504)
                      --.+|.+|+++.+++.+.+.+...+.+    .|||||||||||||.|.|+|.+++.+      +..++.+.-.+      
T Consensus        28 eKYrPkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~  107 (346)
T KOG0989|consen   28 EKYRPKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVRE  107 (346)
T ss_pred             HHhCCCcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhh
Confidence            345799999999999999988888833    38999999999999999999999762      33333333211      


Q ss_pred             ----hHHHHHHHH-hc----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhh
Q 037859          265 ----NSELRSLLI-DT----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNF  335 (504)
Q Consensus       265 ----~~~l~~l~~-~~----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~  335 (504)
                          -+.+..... ..    +..-|++|||.|.+                                   .....+.|.+.
T Consensus       108 Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsm-----------------------------------tsdaq~aLrr~  152 (346)
T KOG0989|consen  108 KIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSM-----------------------------------TSDAQAALRRT  152 (346)
T ss_pred             hhcCHHHHhhccccccCCCCCcceEEEEechhhh-----------------------------------hHHHHHHHHHH
Confidence                112221111 01    12269999999986                                   23467888888


Q ss_pred             hcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          336 IDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       336 lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      ||..    .....+|+.||+.++|++.+..  |+ .++.|+....+.....++...
T Consensus       153 mE~~----s~~trFiLIcnylsrii~pi~S--RC-~KfrFk~L~d~~iv~rL~~Ia  201 (346)
T KOG0989|consen  153 MEDF----SRTTRFILICNYLSRIIRPLVS--RC-QKFRFKKLKDEDIVDRLEKIA  201 (346)
T ss_pred             Hhcc----ccceEEEEEcCChhhCChHHHh--hH-HHhcCCCcchHHHHHHHHHHH
Confidence            8874    2447899999999999999999  98 578887766655444444443

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

Probab=99.52  E-value=8.8e-14  Score=156.25  Aligned_cols=150  Identities=23%  Similarity=0.269  Sum_probs=111.8

Q ss_pred             ccc-cccChhHHHHHHHhh----------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHH--------
Q 037859          208 FDT-LAMETKKKEEIKKDL----------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSEL--------  268 (504)
Q Consensus       208 f~~-~~~~~~~k~~i~~~l----------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l--------  268 (504)
                      ++. +.+.+..|++|++.+          ...++|+||||||||++++++|+.++.+++.++++.+.+...+        
T Consensus       320 l~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~~~~~~  399 (784)
T PRK10787        320 LDTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHRRTYI  399 (784)
T ss_pred             hhhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccchhccC
Confidence            444 667888999999877          2238899999999999999999999999999998876554433        


Q ss_pred             -------HHHHHhcc-CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          269 -------RSLLIDTS-SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       269 -------~~l~~~~~-~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                             .+.+.... .+.||+|||||.+..    .                           ......+.||..+|.-.
T Consensus       400 g~~~G~~~~~l~~~~~~~~villDEidk~~~----~---------------------------~~g~~~~aLlevld~~~  448 (784)
T PRK10787        400 GSMPGKLIQKMAKVGVKNPLFLLDEIDKMSS----D---------------------------MRGDPASALLEVLDPEQ  448 (784)
T ss_pred             CCCCcHHHHHHHhcCCCCCEEEEEChhhccc----c---------------------------cCCCHHHHHHHHhcccc
Confidence                   22233332 456899999998621    0                           01124567777776310


Q ss_pred             -----c------cCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          341 -----S------ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       341 -----~------~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                           .      ..-+++++|+|+|... |+|||+.  ||+ .|.+..++.++..+|+++|+.
T Consensus       449 ~~~~~d~~~~~~~dls~v~~i~TaN~~~-i~~aLl~--R~~-ii~~~~~t~eek~~Ia~~~L~  507 (784)
T PRK10787        449 NVAFSDHYLEVDYDLSDVMFVATSNSMN-IPAPLLD--RME-VIRLSGYTEDEKLNIAKRHLL  507 (784)
T ss_pred             EEEEecccccccccCCceEEEEcCCCCC-CCHHHhc--cee-eeecCCCCHHHHHHHHHHhhh
Confidence                 0      0125589999999884 9999999  995 789999999999999999983

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

Probab=99.52  E-value=2.1e-14  Score=160.11  Aligned_cols=150  Identities=23%  Similarity=0.342  Sum_probs=107.2

Q ss_pred             cccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccC--------C
Q 037859          207 TFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQ--------D  264 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~--------~  264 (504)
                      .++.+++.+...++++..+    +..+||+||||||||++|+++|..+          +..+|.+++..+.        .
T Consensus       184 ~~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~~~Ge~  263 (758)
T PRK11034        184 GIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDF  263 (758)
T ss_pred             CCCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccchhhhH
Confidence            3667788888888888776    5579999999999999999999864          5677777665442        1


Q ss_pred             hHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc
Q 037859          265 NSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA  342 (504)
Q Consensus       265 ~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~  342 (504)
                      ...++.++...  ..++||||||||.++...+.                           ......+..+|..+     .
T Consensus       264 e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~---------------------------~~g~~d~~nlLkp~-----L  311 (758)
T PRK11034        264 EKRFKALLKQLEQDTNSILFIDEIHTIIGAGAA---------------------------SGGQVDAANLIKPL-----L  311 (758)
T ss_pred             HHHHHHHHHHHHhcCCCEEEeccHHHHhccCCC---------------------------CCcHHHHHHHHHHH-----H
Confidence            23456666543  46789999999998631110                           01111223333321     1


Q ss_pred             CCCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          343 SGEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       343 ~~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      ..+++.+|++||..+     .+||||.|  ||+ .|.++.|+.+++..|++.+.
T Consensus       312 ~~g~i~vIgATt~~E~~~~~~~D~AL~r--RFq-~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        312 SSGKIRVIGSTTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             hCCCeEEEecCChHHHHHHhhccHHHHh--hCc-EEEeCCCCHHHHHHHHHHHH
Confidence            245688999999876     47999999  996 79999999999999998654

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.52  E-value=1.2e-13  Score=149.88  Aligned_cols=146  Identities=23%  Similarity=0.391  Sum_probs=112.5

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i  254 (504)
                      +|.+|+++++++..++.+...+     +..||||||||+|||++|+++|+.+++                        ++
T Consensus        11 RP~~f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv   90 (563)
T PRK06647         11 RPRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDV   90 (563)
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCe
Confidence            6899999999999999998888     556999999999999999999999864                        23


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++...-..-..++.+....      ...-|++|||+|.+                                   +...
T Consensus        91 ~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~L-----------------------------------s~~a  135 (563)
T PRK06647         91 IEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHML-----------------------------------SNSA  135 (563)
T ss_pred             EEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhc-----------------------------------CHHH
Confidence            444332222335566655332      35679999999986                                   1235


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      ++.||..++..    +...++|++|+.+.+|.++|..  |+ ..++|..++.++...+++..+
T Consensus       136 ~naLLK~LEep----p~~~vfI~~tte~~kL~~tI~S--Rc-~~~~f~~l~~~el~~~L~~i~  191 (563)
T PRK06647        136 FNALLKTIEEP----PPYIVFIFATTEVHKLPATIKS--RC-QHFNFRLLSLEKIYNMLKKVC  191 (563)
T ss_pred             HHHHHHhhccC----CCCEEEEEecCChHHhHHHHHH--hc-eEEEecCCCHHHHHHHHHHHH
Confidence            77888888753    3557888888888999999999  88 478999999988887777655

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.52  E-value=1.2e-13  Score=150.53  Aligned_cols=148  Identities=17%  Similarity=0.341  Sum_probs=114.7

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc------------------------
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD------------------------  253 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~------------------------  253 (504)
                      ..|.+|+++++++..++.+...+     +.+||||||+|+|||++|+++|+.+++.                        
T Consensus        18 yRP~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i~~   97 (598)
T PRK09111         18 YRPQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAIME   97 (598)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHHhc
Confidence            46899999999999999998887     5679999999999999999999998653                        


Q ss_pred             -----EEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCC
Q 037859          254 -----VYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGS  322 (504)
Q Consensus       254 -----i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  322 (504)
                           ++.++..+..+..+++.++...      ...-|+||||+|.+                                 
T Consensus        98 g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~L---------------------------------  144 (598)
T PRK09111         98 GRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHML---------------------------------  144 (598)
T ss_pred             CCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhC---------------------------------
Confidence                 2233323323445677766544      24679999999986                                 


Q ss_pred             cchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          323 KKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       323 ~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                        +....+.||..|+..    .+..++|++|+.++++.+.++.  |+ ..+.|..++.++....++..+.
T Consensus       145 --s~~a~naLLKtLEeP----p~~~~fIl~tte~~kll~tI~S--Rc-q~~~f~~l~~~el~~~L~~i~~  205 (598)
T PRK09111        145 --STAAFNALLKTLEEP----PPHVKFIFATTEIRKVPVTVLS--RC-QRFDLRRIEADVLAAHLSRIAA  205 (598)
T ss_pred             --CHHHHHHHHHHHHhC----CCCeEEEEEeCChhhhhHHHHh--he-eEEEecCCCHHHHHHHHHHHHH
Confidence              123577888888754    3457888888888899999988  87 6899999999988888777654

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.51  E-value=1.9e-13  Score=146.40  Aligned_cols=147  Identities=20%  Similarity=0.326  Sum_probs=113.7

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i  254 (504)
                      +|.+|+++++++..++.+...+     +..||||||||+|||++|+++|+.+.+                        ++
T Consensus         9 RP~~fdeiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv   88 (535)
T PRK08451          9 RPKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDI   88 (535)
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeE
Confidence            6899999999999999998888     556899999999999999999998732                        34


Q ss_pred             EEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++...-.+-..++.+....      ...-|++|||+|.+                                   +...
T Consensus        89 ~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~L-----------------------------------t~~A  133 (535)
T PRK08451         89 IEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHML-----------------------------------TKEA  133 (535)
T ss_pred             EEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccC-----------------------------------CHHH
Confidence            555443322346677776542      24569999999986                                   2346


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .+.||..|+..    +...++|++|+.+.+|.+++..  |. .+++|..++.++....++..+.
T Consensus       134 ~NALLK~LEEp----p~~t~FIL~ttd~~kL~~tI~S--Rc-~~~~F~~Ls~~ei~~~L~~Il~  190 (535)
T PRK08451        134 FNALLKTLEEP----PSYVKFILATTDPLKLPATILS--RT-QHFRFKQIPQNSIISHLKTILE  190 (535)
T ss_pred             HHHHHHHHhhc----CCceEEEEEECChhhCchHHHh--hc-eeEEcCCCCHHHHHHHHHHHHH
Confidence            77889888754    3446778888888999999999  86 6899999999888777776554

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.51  E-value=7.5e-14  Score=146.45  Aligned_cols=147  Identities=16%  Similarity=0.321  Sum_probs=109.7

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc------------------------
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD------------------------  253 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~------------------------  253 (504)
                      .+|.+|+++++++..++.+...+     +..||||||||||||++|+++|+.+.+.                        
T Consensus        10 ~RP~~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~   89 (397)
T PRK14955         10 YRPKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRD   89 (397)
T ss_pred             cCCCcHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHH
Confidence            36889999999999999888877     5569999999999999999999998652                        


Q ss_pred             --------EEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCccccccccc
Q 037859          254 --------VYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKED  319 (504)
Q Consensus       254 --------i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (504)
                              ++.++.......+.++.+....      ....|+||||+|.+-                             
T Consensus        90 ~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~-----------------------------  140 (397)
T PRK14955         90 FDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLS-----------------------------  140 (397)
T ss_pred             HhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCC-----------------------------
Confidence                    2333332222345666655444      246799999999861                             


Q ss_pred             CCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          320 GGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       320 ~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                            ....+.||..++..    .+..++|++|+.+..+-++|.+  |+ ..++|..++.++....++..+
T Consensus       141 ------~~~~~~LLk~LEep----~~~t~~Il~t~~~~kl~~tl~s--R~-~~v~f~~l~~~ei~~~l~~~~  199 (397)
T PRK14955        141 ------IAAFNAFLKTLEEP----PPHAIFIFATTELHKIPATIAS--RC-QRFNFKRIPLEEIQQQLQGIC  199 (397)
T ss_pred             ------HHHHHHHHHHHhcC----CCCeEEEEEeCChHHhHHHHHH--HH-HHhhcCCCCHHHHHHHHHHHH
Confidence                  12456778877643    3446777777878899999998  77 479999999888887777655

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.51  E-value=1.8e-13  Score=145.35  Aligned_cols=146  Identities=20%  Similarity=0.291  Sum_probs=109.5

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC-------------------------c
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY-------------------------D  253 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~-------------------------~  253 (504)
                      .|.+|+++++++..++.+...+     +..||||||||||||++|+++|+.+.+                         +
T Consensus        12 RP~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d   91 (451)
T PRK06305         12 RPQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD   91 (451)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc
Confidence            6889999999999998888887     556999999999999999999998754                         2


Q ss_pred             EEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhh
Q 037859          254 VYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV  327 (504)
Q Consensus       254 i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  327 (504)
                      ++.++.....+.+.++.+....      ..+.|++|||+|.+-                                   ..
T Consensus        92 ~~~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt-----------------------------------~~  136 (451)
T PRK06305         92 VLEIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLT-----------------------------------KE  136 (451)
T ss_pred             eEEeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhC-----------------------------------HH
Confidence            3344332222234454433222      467899999999861                                   12


Q ss_pred             HHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          328 TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       328 ~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      ..+.||..|+..    .+..++|++||.+.+|.++|.+  |+ ..++|..++.++....+...+
T Consensus       137 ~~n~LLk~lEep----~~~~~~Il~t~~~~kl~~tI~s--Rc-~~v~f~~l~~~el~~~L~~~~  193 (451)
T PRK06305        137 AFNSLLKTLEEP----PQHVKFFLATTEIHKIPGTILS--RC-QKMHLKRIPEETIIDKLALIA  193 (451)
T ss_pred             HHHHHHHHhhcC----CCCceEEEEeCChHhcchHHHH--hc-eEEeCCCCCHHHHHHHHHHHH
Confidence            457788888753    3457788888989999999999  88 579999999988877776654

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.50  E-value=1.4e-13  Score=143.27  Aligned_cols=141  Identities=21%  Similarity=0.306  Sum_probs=104.7

Q ss_pred             cccccccChhHHHHHHHhh--------------cccccccCCCCCcHHHHHHHHHHhcCCc-------------------
Q 037859          207 TFDTLAMETKKKEEIKKDL--------------KKGYLLYGPPGTGKSTMIAAMANFLNYD-------------------  253 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l--------------~rg~LL~GPpGtGKTsla~aiA~~l~~~-------------------  253 (504)
                      .|+++++++..++.+...+              +.+|||+||||+|||++|+++|+.+.++                   
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            4788899998888777666              3459999999999999999999987543                   


Q ss_pred             ----EEEEecccc-CChHHHHHHHHhcc------CCeEEEEecccccccccccccccccccccccccCcccccccccCCC
Q 037859          254 ----VYDLELTTV-QDNSELRSLLIDTS------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGS  322 (504)
Q Consensus       254 ----i~~l~~~~~-~~~~~l~~l~~~~~------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  322 (504)
                          ++.+..... ....+++.++....      .+.|+||||+|.+-                                
T Consensus        83 ~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~--------------------------------  130 (394)
T PRK07940         83 THPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLT--------------------------------  130 (394)
T ss_pred             CCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcC--------------------------------
Confidence                333333221 23456777765542      45699999999861                                


Q ss_pred             cchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHH
Q 037859          323 KKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKN  389 (504)
Q Consensus       323 ~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~  389 (504)
                         ....+.||..|+..    +.+.++|++|+.++.|+|++++  |+ ..|.|+.|+.++...++..
T Consensus       131 ---~~aanaLLk~LEep----~~~~~fIL~a~~~~~llpTIrS--Rc-~~i~f~~~~~~~i~~~L~~  187 (394)
T PRK07940        131 ---ERAANALLKAVEEP----PPRTVWLLCAPSPEDVLPTIRS--RC-RHVALRTPSVEAVAEVLVR  187 (394)
T ss_pred             ---HHHHHHHHHHhhcC----CCCCeEEEEECChHHChHHHHh--hC-eEEECCCCCHHHHHHHHHH
Confidence               22457788888753    3446677777779999999999  88 6899999999998877764

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.50  E-value=2.1e-13  Score=148.92  Aligned_cols=146  Identities=15%  Similarity=0.336  Sum_probs=110.7

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc-------------------------
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD-------------------------  253 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~-------------------------  253 (504)
                      +|.+|+++++++..++.+...+     +.+|||+||||||||++|+++|+.+++.                         
T Consensus        11 RP~~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~   90 (620)
T PRK14954         11 RPSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDF   90 (620)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHH
Confidence            6889999999999999888877     5569999999999999999999999762                         


Q ss_pred             -------EEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccC
Q 037859          254 -------VYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDG  320 (504)
Q Consensus       254 -------i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (504)
                             +..++.......++++.+....      ..+-|++|||+|.+-                              
T Consensus        91 ~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt------------------------------  140 (620)
T PRK14954         91 DAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLS------------------------------  140 (620)
T ss_pred             hccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcC------------------------------
Confidence                   2223322222345677665544      356799999999861                              


Q ss_pred             CCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          321 GSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       321 ~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                           ....+.||..|+..    .+..++|++|+.+.+|.++|.+  |. ..++|..++.++....+...+
T Consensus       141 -----~~a~naLLK~LEeP----p~~tv~IL~t~~~~kLl~TI~S--Rc-~~vef~~l~~~ei~~~L~~i~  199 (620)
T PRK14954        141 -----TAAFNAFLKTLEEP----PPHAIFIFATTELHKIPATIAS--RC-QRFNFKRIPLDEIQSQLQMIC  199 (620)
T ss_pred             -----HHHHHHHHHHHhCC----CCCeEEEEEeCChhhhhHHHHh--hc-eEEecCCCCHHHHHHHHHHHH
Confidence                 12467788888754    3446777777888999999998  77 689999999988877766544

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

Probab=99.49  E-value=1.4e-13  Score=147.40  Aligned_cols=166  Identities=19%  Similarity=0.275  Sum_probs=122.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC------ChHHHHHHHHhcc--CCeEEEEeccccccccccccccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ------DNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKK  299 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~------~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~  299 (504)
                      .+||+|+||||||++++++|.++|.+++.++|.++.      +...+...|..+.  +|+|||+-++|.+.   ..+   
T Consensus       433 ~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~~etkl~~~f~~a~~~~pavifl~~~dvl~---id~---  506 (953)
T KOG0736|consen  433 SVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASHTETKLQAIFSRARRCSPAVLFLRNLDVLG---IDQ---  506 (953)
T ss_pred             EEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccchhHHHHHHHHHHHhhcCceEEEEeccceee---ecC---
Confidence            389999999999999999999999999999998873      4456778887764  79999999999863   111   


Q ss_pred             ccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCC
Q 037859          300 KEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCC  379 (504)
Q Consensus       300 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~  379 (504)
                                        +.+....-...+..++. +|-.. ......|+|+||+..+.|++.+.+  -|-..|.++.|+
T Consensus       507 ------------------dgged~rl~~~i~~~ls-~e~~~-~~~~~~ivv~t~~s~~~lp~~i~~--~f~~ei~~~~ls  564 (953)
T KOG0736|consen  507 ------------------DGGEDARLLKVIRHLLS-NEDFK-FSCPPVIVVATTSSIEDLPADIQS--LFLHEIEVPALS  564 (953)
T ss_pred             ------------------CCchhHHHHHHHHHHHh-ccccc-CCCCceEEEEeccccccCCHHHHH--hhhhhccCCCCC
Confidence                              00011111222333333 33332 234668999999999999999999  777899999999


Q ss_pred             HHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhhC
Q 037859          380 FEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       380 ~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      .++|.+|++.|+.............++..+ +||.+++..+..
T Consensus       565 e~qRl~iLq~y~~~~~~n~~v~~k~~a~~t~gfs~~~L~~l~~  607 (953)
T KOG0736|consen  565 EEQRLEILQWYLNHLPLNQDVNLKQLARKTSGFSFGDLEALVA  607 (953)
T ss_pred             HHHHHHHHHHHHhccccchHHHHHHHHHhcCCCCHHHHHHHhc
Confidence            999999999998654333223334555555 999999986655

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.49  E-value=3.4e-13  Score=147.96  Aligned_cols=145  Identities=23%  Similarity=0.376  Sum_probs=111.5

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC--------------------------
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY--------------------------  252 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~--------------------------  252 (504)
                      .|..|+.+++++..++.+...+     ..+||||||||||||++|+++|+.+++                          
T Consensus        11 RP~~f~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~h~   90 (620)
T PRK14948         11 RPQRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGNAL   90 (620)
T ss_pred             CCCcHhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCCCc
Confidence            5889999999999999888877     456899999999999999999999865                          


Q ss_pred             cEEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchh
Q 037859          253 DVYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSK  326 (504)
Q Consensus       253 ~i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  326 (504)
                      +++.++.......+.++.++..+      ...-|++|||+|.+                                   +.
T Consensus        91 D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~L-----------------------------------t~  135 (620)
T PRK14948         91 DVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHML-----------------------------------ST  135 (620)
T ss_pred             cEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECcccc-----------------------------------CH
Confidence            34444443323445677776554      24579999999986                                   12


Q ss_pred             hHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHh
Q 037859          327 VTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       327 ~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~  390 (504)
                      ...+.||..|+.-    .+..++|++|+.++.+-++|+.  |+ ..++|..++.++....+...
T Consensus       136 ~a~naLLK~LEeP----p~~tvfIL~t~~~~~llpTIrS--Rc-~~~~f~~l~~~ei~~~L~~i  192 (620)
T PRK14948        136 AAFNALLKTLEEP----PPRVVFVLATTDPQRVLPTIIS--RC-QRFDFRRIPLEAMVQHLSEI  192 (620)
T ss_pred             HHHHHHHHHHhcC----CcCeEEEEEeCChhhhhHHHHh--he-eEEEecCCCHHHHHHHHHHH
Confidence            3567889998853    3457888888889999999998  88 67899988887766655543

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

Probab=99.48  E-value=2.6e-13  Score=144.30  Aligned_cols=189  Identities=16%  Similarity=0.263  Sum_probs=129.8

Q ss_pred             cccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhcCC----cEEEEeccccCC--hHHHH----HHH
Q 037859          209 DTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFLNY----DVYDLELTTVQD--NSELR----SLL  272 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l~~----~i~~l~~~~~~~--~~~l~----~l~  272 (504)
                      .+++..+..|+...++.      +..+||+||+|||||.|++++++++..    ++..++|+.+..  -+.++    ..|
T Consensus       408 ~d~i~~~s~kke~~n~~~spv~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vf  487 (952)
T KOG0735|consen  408 HDFIQVPSYKKENANQELSPVFRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQKFLNNVF  487 (952)
T ss_pred             CceeecchhhhhhhhhhcccccccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHHHHHHHHHHHH
Confidence            45556666666665544      455999999999999999999999854    355678877643  23333    444


Q ss_pred             Hhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEE
Q 037859          273 IDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIV  350 (504)
Q Consensus       273 ~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI  350 (504)
                      .++  -.|+||++||+|+++...+.                      ..+........+..+||.+-......+..+.+|
T Consensus       488 se~~~~~PSiIvLDdld~l~~~s~~----------------------e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~I  545 (952)
T KOG0735|consen  488 SEALWYAPSIIVLDDLDCLASASSN----------------------ENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVI  545 (952)
T ss_pred             HHHHhhCCcEEEEcchhhhhccCcc----------------------cCCcchHHHHHHHHHHHHHHHHHHccCcEEEEE
Confidence            443  37999999999998641110                      011122233345566654432222334446789


Q ss_pred             EecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCC-cchHHHHhcCccCC-CCCHHHHHHh
Q 037859          351 FTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDS-HELYAVIESMPAET-NMTPADVAEN  419 (504)
Q Consensus       351 ~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~-~~~~~~i~~l~~~~-~~s~a~i~~~  419 (504)
                      +|.+....|+|-|..|++|+.++.++.|..++|..|+...+.... ....++++-++.++ ||.+-|+.-+
T Consensus       546 at~qe~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~~~~~~~dLd~ls~~TEGy~~~DL~if  616 (952)
T KOG0735|consen  546 ATGQELQTLNPLLVSPLLFQIVIALPAPAVTRRKEILTTIFSKNLSDITMDDLDFLSVKTEGYLATDLVIF  616 (952)
T ss_pred             EechhhhhcChhhcCccceEEEEecCCcchhHHHHHHHHHHHhhhhhhhhHHHHHHHHhcCCccchhHHHH
Confidence            999999999999999999999999999999999999999886432 22344445455555 8988887643

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.48  E-value=2.3e-13  Score=147.46  Aligned_cols=152  Identities=24%  Similarity=0.381  Sum_probs=106.1

Q ss_pred             CCCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccC-ChHH
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQ-DNSE  267 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~-~~~~  267 (504)
                      .+|.+|++++++....+.+...+    +..+|||||||||||++|+++.++.          +.+++.++++... +...
T Consensus        59 ~rp~~f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~~~~~~~~  138 (531)
T TIGR02902        59 TRPKSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATTARFDERG  138 (531)
T ss_pred             hCcCCHHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEccccccCCccc
Confidence            46889999999998888887666    5679999999999999999998642          3578888886421 1111


Q ss_pred             HH-HHH--------------------------HhccCCeEEEEecccccccccccccccccccccccccCcccccccccC
Q 037859          268 LR-SLL--------------------------IDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDG  320 (504)
Q Consensus       268 l~-~l~--------------------------~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (504)
                      +. .++                          .......+|||||||.+-                              
T Consensus       139 ~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~------------------------------  188 (531)
T TIGR02902       139 IADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELH------------------------------  188 (531)
T ss_pred             cchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCC------------------------------
Confidence            10 011                          011245799999999862                              


Q ss_pred             CCcchhhHHHHHhhhhcCc--------cc-----------------cCCCceEEEEecCCCCCCChhhhcCCCceeEEEe
Q 037859          321 GSKKSKVTLSGLLNFIDGL--------WS-----------------ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEM  375 (504)
Q Consensus       321 ~~~~~~~~ls~lL~~lDg~--------~~-----------------~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~  375 (504)
                           ....+.||..|+.-        .+                 ...+-++|++|||.++.|+|||++  |+ ..|.|
T Consensus       189 -----~~~q~~LL~~Le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrs--R~-~~I~f  260 (531)
T TIGR02902       189 -----PVQMNKLLKVLEDRKVFLDSAYYNSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRS--RC-VEIFF  260 (531)
T ss_pred             -----HHHHHHHHHHHHhCeeeeccccccccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhh--hh-heeeC
Confidence                 22344444444210        00                 011225667788899999999999  98 57899


Q ss_pred             cCCCHHHHHHHHHHhcC
Q 037859          376 SYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       376 ~~p~~e~~~~i~~~~l~  392 (504)
                      +.++.+++..|+++.+.
T Consensus       261 ~pL~~eei~~Il~~~a~  277 (531)
T TIGR02902       261 RPLLDEEIKEIAKNAAE  277 (531)
T ss_pred             CCCCHHHHHHHHHHHHH
Confidence            99999999999998764

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.

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.47  E-value=5e-13  Score=136.93  Aligned_cols=148  Identities=14%  Similarity=0.240  Sum_probs=103.1

Q ss_pred             CCCccccccccChhHHHHHHHhh--cc--cccccCCCCCcHHHHHHHHHHhcCC-----cEEEEeccccCC---------
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL--KK--GYLLYGPPGTGKSTMIAAMANFLNY-----DVYDLELTTVQD---------  264 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l--~r--g~LL~GPpGtGKTsla~aiA~~l~~-----~i~~l~~~~~~~---------  264 (504)
                      ..|.+|+++++++..++.+...+  ++  ++|||||||||||++|+++|+++..     ++..+++.....         
T Consensus         9 y~P~~~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~   88 (337)
T PRK12402          9 YRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKKYLVED   88 (337)
T ss_pred             hCCCcHHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcchhhhhcC
Confidence            36899999999999999988877  33  6899999999999999999998842     356666654210         


Q ss_pred             -----------------hHHHHHHHHhc-------cCCeEEEEecccccccccccccccccccccccccCcccccccccC
Q 037859          265 -----------------NSELRSLLIDT-------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDG  320 (504)
Q Consensus       265 -----------------~~~l~~l~~~~-------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (504)
                                       ...++.++...       ..+.+|+|||+|.+-                              
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~------------------------------  138 (337)
T PRK12402         89 PRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALR------------------------------  138 (337)
T ss_pred             cchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCC------------------------------
Confidence                             11122222111       245699999999751                              


Q ss_pred             CCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          321 GSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       321 ~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                           ......|+..++...    ....+|++|+.+..+.++|..  |+ ..+.+..|+.+++..+++..+.
T Consensus       139 -----~~~~~~L~~~le~~~----~~~~~Il~~~~~~~~~~~L~s--r~-~~v~~~~~~~~~~~~~l~~~~~  198 (337)
T PRK12402        139 -----EDAQQALRRIMEQYS----RTCRFIIATRQPSKLIPPIRS--RC-LPLFFRAPTDDELVDVLESIAE  198 (337)
T ss_pred             -----HHHHHHHHHHHHhcc----CCCeEEEEeCChhhCchhhcC--Cc-eEEEecCCCHHHHHHHHHHHHH
Confidence                 012334555555432    224566677777788888888  76 5799999999999888887654

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.47  E-value=4.1e-13  Score=135.09  Aligned_cols=145  Identities=15%  Similarity=0.190  Sum_probs=103.7

Q ss_pred             ccccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHH----------------
Q 037859          210 TLAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSL----------------  271 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l----------------  271 (504)
                      .+.++++....|+..+  ++.+||.||||||||++++.+|..++++++.++++......++...                
T Consensus        46 ~y~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~  125 (327)
T TIGR01650        46 AYLFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRD  125 (327)
T ss_pred             CccCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEec
Confidence            5677777777777777  7889999999999999999999999999999988765332222110                


Q ss_pred             --H-HhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC--cc------
Q 037859          272 --L-IDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG--LW------  340 (504)
Q Consensus       272 --~-~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg--~~------  340 (504)
                        + .....++++++||||.+                                   ...+++.|+..||.  ..      
T Consensus       126 GpL~~A~~~g~illlDEin~a-----------------------------------~p~~~~~L~~lLE~~~~l~i~~~~  170 (327)
T TIGR01650       126 GILPWALQHNVALCFDEYDAG-----------------------------------RPDVMFVIQRVLEAGGKLTLLDQN  170 (327)
T ss_pred             CcchhHHhCCeEEEechhhcc-----------------------------------CHHHHHHHHHHhccCCeEEECCCc
Confidence              1 11136788999999984                                   11234443333331  10      


Q ss_pred             --ccCCCceEEEEecCCCC------------CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          341 --SASGEERIIVFTTNYVD------------KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       341 --~~~~~~~ivI~tTN~~e------------~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                        -.......+|+|+|..+            .|++|++.  ||-+.+.++||+.+.-..|+....
T Consensus       171 ~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~~l~~A~lD--RF~i~~~~~Yp~~e~E~~Il~~~~  233 (327)
T TIGR01650       171 RVIRAHPAFRLFATANTIGLGDTTGLYHGTQQINQAQMD--RWSIVTTLNYLEHDNEAAIVLAKA  233 (327)
T ss_pred             eEecCCCCeEEEEeeCCCCcCCCCcceeeeecCCHHHHh--heeeEeeCCCCCHHHHHHHHHhhc
Confidence              01223467899999865            36899999  998788999999999888887654

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.

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

Probab=99.46  E-value=5.4e-13  Score=148.94  Aligned_cols=146  Identities=18%  Similarity=0.364  Sum_probs=109.1

Q ss_pred             ccccChhHHHHHHHhh------------ccc-ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHH---
Q 037859          210 TLAMETKKKEEIKKDL------------KKG-YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLI---  273 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l------------~rg-~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~---  273 (504)
                      .|+++++.++.|...+            |.| +||+||||||||.+|+++|..++.+++.++++.......+.+++.   
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~LiG~~~  538 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPP  538 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHcCCCC
Confidence            4678888888877776            233 899999999999999999999999999999887643222332221   


Q ss_pred             ------------h---ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          274 ------------D---TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       274 ------------~---~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                                  +   ....+||||||||.+                                   +....+.||..||.
T Consensus       539 gyvg~~~~g~L~~~v~~~p~sVlllDEieka-----------------------------------~~~v~~~LLq~ld~  583 (758)
T PRK11034        539 GYVGFDQGGLLTDAVIKHPHAVLLLDEIEKA-----------------------------------HPDVFNLLLQVMDN  583 (758)
T ss_pred             CcccccccchHHHHHHhCCCcEEEeccHhhh-----------------------------------hHHHHHHHHHHHhc
Confidence                        1   134699999999985                                   23467788888873


Q ss_pred             c-c-ccCC-----CceEEEEecCCC-------------------------CCCChhhhcCCCceeEEEecCCCHHHHHHH
Q 037859          339 L-W-SASG-----EERIIVFTTNYV-------------------------DKLDPALIRRGRMDKHIEMSYCCFEAFKVL  386 (504)
Q Consensus       339 ~-~-~~~~-----~~~ivI~tTN~~-------------------------e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i  386 (504)
                      - - ...+     .+.|+|+|||.-                         ..+.|.|+.  |+|.+|.|...+.++...|
T Consensus       584 G~ltd~~g~~vd~rn~iiI~TsN~g~~~~~~~~~g~~~~~~~~~~~~~~~~~f~pefl~--Rid~ii~f~~L~~~~l~~I  661 (758)
T PRK11034        584 GTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQV  661 (758)
T ss_pred             CeeecCCCceecCCCcEEEEeCCcCHHHHhhcccCcccchhhHHHHHHHHHhcCHHHHc--cCCEEEEcCCCCHHHHHHH
Confidence            2 1 1111     356899999922                         236688888  9999999999999999999


Q ss_pred             HHHhcC
Q 037859          387 AKNYLD  392 (504)
Q Consensus       387 ~~~~l~  392 (504)
                      +..++.
T Consensus       662 ~~~~l~  667 (758)
T PRK11034        662 VDKFIV  667 (758)
T ss_pred             HHHHHH
Confidence            988874

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.46  E-value=5.2e-13  Score=146.52  Aligned_cols=147  Identities=16%  Similarity=0.341  Sum_probs=110.0

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC-------------------------c
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY-------------------------D  253 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~-------------------------~  253 (504)
                      .|.+|+++++++..++.+...+     +..||||||||||||++|+++|+.+++                         +
T Consensus        11 RP~~~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d   90 (585)
T PRK14950         11 RSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVD   90 (585)
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCe
Confidence            6899999999999999988877     344899999999999999999998753                         2


Q ss_pred             EEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhh
Q 037859          254 VYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV  327 (504)
Q Consensus       254 i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  327 (504)
                      ++.++.......+.++.+....      ....|+||||+|.+-                                   ..
T Consensus        91 ~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~-----------------------------------~~  135 (585)
T PRK14950         91 VIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLS-----------------------------------TA  135 (585)
T ss_pred             EEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCC-----------------------------------HH
Confidence            3344443333345565554332      346799999999861                                   23


Q ss_pred             HHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          328 TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       328 ~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .++.||..|+..    ....+||++|+..+.+.+.|..  |+ ..+.|..++.++...++.....
T Consensus       136 a~naLLk~LEep----p~~tv~Il~t~~~~kll~tI~S--R~-~~i~f~~l~~~el~~~L~~~a~  193 (585)
T PRK14950        136 AFNALLKTLEEP----PPHAIFILATTEVHKVPATILS--RC-QRFDFHRHSVADMAAHLRKIAA  193 (585)
T ss_pred             HHHHHHHHHhcC----CCCeEEEEEeCChhhhhHHHHh--cc-ceeeCCCCCHHHHHHHHHHHHH
Confidence            567788888764    2446788888888889899988  77 5789999998888877776643

>PRK06893 DNA replication initiation factor; Validated

Probab=99.46  E-value=4.5e-13  Score=130.25  Aligned_cols=152  Identities=14%  Similarity=0.227  Sum_probs=96.7

Q ss_pred             ecCCCccccccccChhHHHHHHHhh--------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHH
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDL--------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELR  269 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l--------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~  269 (504)
                      +...+.+|++++..+..  .....+        ...++||||||||||+|+.|+|+++   +....++++....  ....
T Consensus         8 ~~~~~~~fd~f~~~~~~--~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~--~~~~   83 (229)
T PRK06893          8 HQIDDETLDNFYADNNL--LLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQ--YFSP   83 (229)
T ss_pred             CCCCcccccccccCChH--HHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhh--hhhH
Confidence            44556789998866532  122211        2236899999999999999999986   4566666664321  1122


Q ss_pred             HHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEE
Q 037859          270 SLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERII  349 (504)
Q Consensus       270 ~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~iv  349 (504)
                      +.+....+..+|+|||||.+.   +.                           ......+-.++|.+   ..  .+..++
T Consensus        84 ~~~~~~~~~dlLilDDi~~~~---~~---------------------------~~~~~~l~~l~n~~---~~--~~~~il  128 (229)
T PRK06893         84 AVLENLEQQDLVCLDDLQAVI---GN---------------------------EEWELAIFDLFNRI---KE--QGKTLL  128 (229)
T ss_pred             HHHhhcccCCEEEEeChhhhc---CC---------------------------hHHHHHHHHHHHHH---HH--cCCcEE
Confidence            444455567899999999852   11                           11122344444433   21  233455


Q ss_pred             EEecC-CCCCC---ChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          350 VFTTN-YVDKL---DPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       350 I~tTN-~~e~L---d~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      |+|+| .|..+   .|.|.++.+.+..+.++.|+.+.+..|+++..
T Consensus       129 lits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a  174 (229)
T PRK06893        129 LISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNA  174 (229)
T ss_pred             EEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHH
Confidence            55555 45554   48999955556789999999999999998765

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.46  E-value=1.1e-13  Score=157.55  Aligned_cols=148  Identities=20%  Similarity=0.288  Sum_probs=109.2

Q ss_pred             cccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccC--------C
Q 037859          207 TFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQ--------D  264 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~--------~  264 (504)
                      .++.+++.++..+++++.+    +++++|+||||||||++|+++|..+          +.+++.++++.+.        .
T Consensus       177 ~~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~~~~ge~  256 (821)
T CHL00095        177 NLDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEF  256 (821)
T ss_pred             CCCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCCCccHH
Confidence            4677888898888888887    6789999999999999999999986          4789999987542        1


Q ss_pred             hHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc
Q 037859          265 NSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA  342 (504)
Q Consensus       265 ~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~  342 (504)
                      ...++.++.++  ..++||||||||.++...+                        ..+.    ...+.+|...     .
T Consensus       257 e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~------------------------~~g~----~~~a~lLkp~-----l  303 (821)
T CHL00095        257 EERLKRIFDEIQENNNIILVIDEVHTLIGAGA------------------------AEGA----IDAANILKPA-----L  303 (821)
T ss_pred             HHHHHHHHHHHHhcCCeEEEEecHHHHhcCCC------------------------CCCc----ccHHHHhHHH-----H
Confidence            24677888765  3589999999999863110                        0011    1233333321     1


Q ss_pred             CCCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHh
Q 037859          343 SGEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       343 ~~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~  390 (504)
                      ..+++.+|++||..+     ..||+|.|  ||. .|.++.|+.++...|++..
T Consensus       304 ~rg~l~~IgaTt~~ey~~~ie~D~aL~r--Rf~-~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        304 ARGELQCIGATTLDEYRKHIEKDPALER--RFQ-PVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             hCCCcEEEEeCCHHHHHHHHhcCHHHHh--cce-EEecCCCCHHHHHHHHHHH
Confidence            245688899888764     36999999  995 6899999999988887754

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.45  E-value=7.6e-13  Score=145.21  Aligned_cols=147  Identities=18%  Similarity=0.367  Sum_probs=115.2

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcC-------------------------C
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLN-------------------------Y  252 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~-------------------------~  252 (504)
                      .+|.+|+++++++..++.+...+     +..||||||+|+|||++|+++|+.++                         .
T Consensus        11 yRP~~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~   90 (614)
T PRK14971         11 YRPSTFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSY   90 (614)
T ss_pred             HCCCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCC
Confidence            46899999999999999999888     55699999999999999999999875                         3


Q ss_pred             cEEEEeccccCChHHHHHHHHhcc------CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchh
Q 037859          253 DVYDLELTTVQDNSELRSLLIDTS------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSK  326 (504)
Q Consensus       253 ~i~~l~~~~~~~~~~l~~l~~~~~------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  326 (504)
                      +++.++..+......++.++..+.      ..-|++|||+|.+                                   +.
T Consensus        91 n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~L-----------------------------------s~  135 (614)
T PRK14971         91 NIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHML-----------------------------------SQ  135 (614)
T ss_pred             ceEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccC-----------------------------------CH
Confidence            455566554444567777775442      4569999999986                                   12


Q ss_pred             hHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          327 VTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       327 ~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      ...+.||..|+..    .+..++|++|+.+.+|-++|+.  |+ ..++|..++.++....++..+
T Consensus       136 ~a~naLLK~LEep----p~~tifIL~tt~~~kIl~tI~S--Rc-~iv~f~~ls~~ei~~~L~~ia  193 (614)
T PRK14971        136 AAFNAFLKTLEEP----PSYAIFILATTEKHKILPTILS--RC-QIFDFNRIQVADIVNHLQYVA  193 (614)
T ss_pred             HHHHHHHHHHhCC----CCCeEEEEEeCCchhchHHHHh--hh-heeecCCCCHHHHHHHHHHHH
Confidence            3567888888854    3446788888888999999999  87 579999999988887776654

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.41  E-value=1e-12  Score=126.92  Aligned_cols=151  Identities=13%  Similarity=0.175  Sum_probs=95.3

Q ss_pred             ecCCCcccccccc--ChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHH
Q 037859          201 FFEHPATFDTLAM--ETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSL  271 (504)
Q Consensus       201 ~~~~p~~f~~~~~--~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l  271 (504)
                      +...+.+|+++..  +....+.+...+    ++.++|+||||||||++|+++++++   +.+++++++..+..  .....
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~--~~~~~   84 (226)
T TIGR03420         7 GLPDDPTFDNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQ--ADPEV   84 (226)
T ss_pred             CCCCchhhcCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHH--hHHHH
Confidence            3344556778763  222344444433    5679999999999999999999876   46788888877642  22334


Q ss_pred             HHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEE
Q 037859          272 LIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVF  351 (504)
Q Consensus       272 ~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~  351 (504)
                      +.......+|+|||+|.+-.                              ...   ....|...++....  .+. .+|+
T Consensus        85 ~~~~~~~~lLvIDdi~~l~~------------------------------~~~---~~~~L~~~l~~~~~--~~~-~iIi  128 (226)
T TIGR03420        85 LEGLEQADLVCLDDVEAIAG------------------------------QPE---WQEALFHLYNRVRE--AGG-RLLI  128 (226)
T ss_pred             HhhcccCCEEEEeChhhhcC------------------------------ChH---HHHHHHHHHHHHHH--cCC-eEEE
Confidence            44444567999999998520                              000   12233333333221  122 4455


Q ss_pred             ecC-CCCCC---ChhhhcCCCc--eeEEEecCCCHHHHHHHHHHhc
Q 037859          352 TTN-YVDKL---DPALIRRGRM--DKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       352 tTN-~~e~L---d~ALlRpGR~--d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      |+| .+..+   ++.|.+  |+  ..+|.++.|+.+++..+++.+.
T Consensus       129 ts~~~~~~~~~~~~~L~~--r~~~~~~i~l~~l~~~e~~~~l~~~~  172 (226)
T TIGR03420       129 AGRAAPAQLPLRLPDLRT--RLAWGLVFQLPPLSDEEKIAALQSRA  172 (226)
T ss_pred             ECCCChHHCCcccHHHHH--HHhcCeeEecCCCCHHHHHHHHHHHH
Confidence            555 33333   278887  66  4789999999999999887764

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.

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

Probab=99.41  E-value=1.1e-12  Score=139.09  Aligned_cols=148  Identities=20%  Similarity=0.371  Sum_probs=120.8

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc------------------------E
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD------------------------V  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~------------------------i  254 (504)
                      +|..|+++++++...+.|...+     ..+|||.||-||||||+|+.+|..+++.                        +
T Consensus        11 RP~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~~~Dv   90 (515)
T COG2812          11 RPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGSLIDV   90 (515)
T ss_pred             CcccHHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhcCCcccc
Confidence            5889999999999999888888     7789999999999999999999988653                        2


Q ss_pred             EEEeccccCChHHHHHHHHhcc------CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDTS------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~~------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.+|..+-.+-+++|.+..+..      +.-|.+|||+|.+                                   ++..
T Consensus        91 iEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHML-----------------------------------S~~a  135 (515)
T COG2812          91 IEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHML-----------------------------------SKQA  135 (515)
T ss_pred             hhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhh-----------------------------------hHHH
Confidence            3333333345567788777652      4569999999986                                   3557


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      .+.||..++.-    ...+++|++|..+.++++.++.  |+ .+..|..-+.++....++.++..
T Consensus       136 fNALLKTLEEP----P~hV~FIlATTe~~Kip~TIlS--Rc-q~f~fkri~~~~I~~~L~~i~~~  193 (515)
T COG2812         136 FNALLKTLEEP----PSHVKFILATTEPQKIPNTILS--RC-QRFDFKRLDLEEIAKHLAAILDK  193 (515)
T ss_pred             HHHHhcccccC----ccCeEEEEecCCcCcCchhhhh--cc-ccccccCCCHHHHHHHHHHHHHh
Confidence            89999998753    5669999999999999999999  88 67889999999888888887764

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.41  E-value=3.1e-12  Score=134.00  Aligned_cols=159  Identities=23%  Similarity=0.272  Sum_probs=104.6

Q ss_pred             cc-ccccChhHHHHHHHhh--------------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC--
Q 037859          208 FD-TLAMETKKKEEIKKDL--------------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD--  264 (504)
Q Consensus       208 f~-~~~~~~~~k~~i~~~l--------------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~--  264 (504)
                      ++ .+++++..|+.+...+                    ..++||+||||||||++|+++|..++.+++.++++.+..  
T Consensus        69 L~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~~g  148 (412)
T PRK05342         69 LDQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAG  148 (412)
T ss_pred             HhhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhcccCC
Confidence            44 3678888888664433                    256999999999999999999999999999999876532  


Q ss_pred             ------hHHHHHHHHh------ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHH
Q 037859          265 ------NSELRSLLID------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGL  332 (504)
Q Consensus       265 ------~~~l~~l~~~------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~l  332 (504)
                            ...+..++..      ...++||||||||.+....+..                     +...+.....+.+.|
T Consensus       149 yvG~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~~~~~---------------------~~~~d~s~~~vQ~~L  207 (412)
T PRK05342        149 YVGEDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARKSENP---------------------SITRDVSGEGVQQAL  207 (412)
T ss_pred             cccchHHHHHHHHHHhccccHHHcCCcEEEEechhhhccccCCC---------------------CcCCCcccHHHHHHH
Confidence                  1223344332      2368999999999974210000                     001112223477889


Q ss_pred             hhhhcCcccc---------CCCceEEEEecCCCC----------------------------------------------
Q 037859          333 LNFIDGLWSA---------SGEERIIVFTTNYVD----------------------------------------------  357 (504)
Q Consensus       333 L~~lDg~~~~---------~~~~~ivI~tTN~~e----------------------------------------------  357 (504)
                      |..|||-...         ...+.++|+|+|-..                                              
T Consensus       208 L~~Leg~~~~v~~~gg~~~~~~~~~~i~t~nilfi~~Gaf~g~~~~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~  287 (412)
T PRK05342        208 LKILEGTVASVPPQGGRKHPQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQVEP  287 (412)
T ss_pred             HHHHhcCeEEeCCCCCcCcCCCCeEEeccCCceeeecccccCcHHHHHHHHhhcccCCccccccccccchhHHHHHhcCH
Confidence            9999874210         112346777777511                                              


Q ss_pred             ------CCChhhhcCCCceeEEEecCCCHHHHHHHHHH
Q 037859          358 ------KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKN  389 (504)
Q Consensus       358 ------~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~  389 (504)
                            .+.|+|+-  |+|..+.|...+.+.+..|+..
T Consensus       288 ~dL~~~gf~PEflg--Rld~iv~f~~L~~~~L~~Il~~  323 (412)
T PRK05342        288 EDLIKFGLIPEFIG--RLPVVATLEELDEEALVRILTE  323 (412)
T ss_pred             HHHHHHhhhHHHhC--CCCeeeecCCCCHHHHHHHHHH
Confidence                  02344444  8998889988888888888864

>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=99.39  E-value=4.4e-13  Score=119.74  Aligned_cols=105  Identities=29%  Similarity=0.423  Sum_probs=74.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHh---------------ccCCeEEEEecccccccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLID---------------TSSKSILVIEDIDCSLDL  292 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~---------------~~~~~Il~iDeiD~~~~~  292 (504)
                      ++||+||||||||++|+.+|..++.+++.+.++...+..+|...+.-               ...++|++||||+.+   
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin~a---   77 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEINRA---   77 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCGG----
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcccC---
Confidence            47999999999999999999999999999999987766665432221               125789999999974   


Q ss_pred             cccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc----------cCC-----CceEEEEecCCCC
Q 037859          293 TGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS----------ASG-----EERIIVFTTNYVD  357 (504)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~----------~~~-----~~~ivI~tTN~~e  357 (504)
                                                      ...++..|+..+|+-.-          ...     .+..+|+|+|..+
T Consensus        78 --------------------------------~~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~  125 (139)
T PF07728_consen   78 --------------------------------PPEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRD  125 (139)
T ss_dssp             ---------------------------------HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST
T ss_pred             --------------------------------CHHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCC
Confidence                                            12345555555543210          011     1378999999998


Q ss_pred             ----CCChhhhcCCCc
Q 037859          358 ----KLDPALIRRGRM  369 (504)
Q Consensus       358 ----~Ld~ALlRpGR~  369 (504)
                          .+++||+|  ||
T Consensus       126 ~~~~~l~~al~~--Rf  139 (139)
T PF07728_consen  126 KGRKELSPALLD--RF  139 (139)
T ss_dssp             --TTTTCHHHHT--T-
T ss_pred             CCcCcCCHHHHh--hC
Confidence                89999999  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.

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

Probab=99.39  E-value=1.9e-12  Score=143.89  Aligned_cols=144  Identities=22%  Similarity=0.336  Sum_probs=102.8

Q ss_pred             CCccccccccChhHHH---HHHHhh----cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHh--
Q 037859          204 HPATFDTLAMETKKKE---EIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLID--  274 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~---~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~--  274 (504)
                      +|.+|+++++++....   .+...+    ...+|||||||||||++|+++|+.++.+++.+++.... ..+++..+..  
T Consensus        23 RP~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~~-i~dir~~i~~a~  101 (725)
T PRK13341         23 RPRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAG-VKDLRAEVDRAK  101 (725)
T ss_pred             CCCcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhhh-hHHHHHHHHHHH
Confidence            4899999999887653   233333    33589999999999999999999999888888765322 2233333322  


Q ss_pred             -----ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEE
Q 037859          275 -----TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERII  349 (504)
Q Consensus       275 -----~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~iv  349 (504)
                           ...+.||||||||.+-                                   ......|+..++.      +.+++
T Consensus       102 ~~l~~~~~~~IL~IDEIh~Ln-----------------------------------~~qQdaLL~~lE~------g~IiL  140 (725)
T PRK13341        102 ERLERHGKRTILFIDEVHRFN-----------------------------------KAQQDALLPWVEN------GTITL  140 (725)
T ss_pred             HHhhhcCCceEEEEeChhhCC-----------------------------------HHHHHHHHHHhcC------ceEEE
Confidence                 2356799999999861                                   1123456665542      33667


Q ss_pred             EEec--CCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          350 VFTT--NYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       350 I~tT--N~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      |++|  |....++++|++  |+ ..+.|+.++.+++..++++++.
T Consensus       141 I~aTTenp~~~l~~aL~S--R~-~v~~l~pLs~edi~~IL~~~l~  182 (725)
T PRK13341        141 IGATTENPYFEVNKALVS--RS-RLFRLKSLSDEDLHQLLKRALQ  182 (725)
T ss_pred             EEecCCChHhhhhhHhhc--cc-cceecCCCCHHHHHHHHHHHHH
Confidence            7655  444578999999  65 4689999999999999988774

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

Probab=99.39  E-value=4.8e-12  Score=142.53  Aligned_cols=146  Identities=16%  Similarity=0.311  Sum_probs=108.0

Q ss_pred             cccccChhHHHHHHHhh------------ccc-ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChH---------
Q 037859          209 DTLAMETKKKEEIKKDL------------KKG-YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNS---------  266 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l------------~rg-~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~---------  266 (504)
                      +.+.++++.++.|...+            |.| +||+||||||||.+|+++|..++.+++.++++......         
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~~~~lig~~  533 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHTVSRLIGAP  533 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcccHHHHhcCC
Confidence            35677887777777766            333 78999999999999999999999999999987653211         


Q ss_pred             ----------HHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhh
Q 037859          267 ----------ELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI  336 (504)
Q Consensus       267 ----------~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~l  336 (504)
                                .+...+. ....+||+|||||.+                                   .....+.||..|
T Consensus       534 ~gyvg~~~~~~l~~~~~-~~p~~VvllDEieka-----------------------------------~~~~~~~Ll~~l  577 (731)
T TIGR02639       534 PGYVGFEQGGLLTEAVR-KHPHCVLLLDEIEKA-----------------------------------HPDIYNILLQVM  577 (731)
T ss_pred             CCCcccchhhHHHHHHH-hCCCeEEEEechhhc-----------------------------------CHHHHHHHHHhh
Confidence                      1222222 235699999999985                                   223667788888


Q ss_pred             cCcccc--C-----CCceEEEEecCCC-------------------------CCCChhhhcCCCceeEEEecCCCHHHHH
Q 037859          337 DGLWSA--S-----GEERIIVFTTNYV-------------------------DKLDPALIRRGRMDKHIEMSYCCFEAFK  384 (504)
Q Consensus       337 Dg~~~~--~-----~~~~ivI~tTN~~-------------------------e~Ld~ALlRpGR~d~~I~~~~p~~e~~~  384 (504)
                      |.-.-.  .     -.+.+||+|||..                         ..+.|.|+.  |||.+|.|...+.++..
T Consensus       578 d~g~~~d~~g~~vd~~~~iii~Tsn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~--Rid~Vi~F~pLs~e~l~  655 (731)
T TIGR02639       578 DYATLTDNNGRKADFRNVILIMTSNAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRN--RLDAIIHFNPLSEEVLE  655 (731)
T ss_pred             ccCeeecCCCcccCCCCCEEEECCCcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHh--cCCeEEEcCCCCHHHHH
Confidence            753211  1     1246899999863                         125778887  99999999999999999


Q ss_pred             HHHHHhcC
Q 037859          385 VLAKNYLD  392 (504)
Q Consensus       385 ~i~~~~l~  392 (504)
                      .|++..+.
T Consensus       656 ~Iv~~~L~  663 (731)
T TIGR02639       656 KIVQKFVD  663 (731)
T ss_pred             HHHHHHHH
Confidence            99998874

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.39  E-value=1.1e-11  Score=127.17  Aligned_cols=145  Identities=23%  Similarity=0.225  Sum_probs=100.1

Q ss_pred             cccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHH------HHH--Hh----cc
Q 037859          211 LAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELR------SLL--ID----TS  276 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~------~l~--~~----~~  276 (504)
                      +.++++....++..+  .+.+||-||||||||++|+++|..++.+++.+.|..-....++.      ...  ..    .+
T Consensus        26 ~~g~~~~~~~~l~a~~~~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~~~~~~~~~~~~~~~~~  105 (329)
T COG0714          26 VVGDEEVIELALLALLAGGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVP  105 (329)
T ss_pred             eeccHHHHHHHHHHHHcCCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCchhHhhhhccCCeEEEec
Confidence            344666666665555  77799999999999999999999999999999998654333331      111  00    11


Q ss_pred             ----CC--eEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc-------c-cc
Q 037859          277 ----SK--SILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL-------W-SA  342 (504)
Q Consensus       277 ----~~--~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~-------~-~~  342 (504)
                          ..  +|+++|||+..                                   ...+.+.||..|+..       . -.
T Consensus       106 gpl~~~~~~ill~DEInra-----------------------------------~p~~q~aLl~~l~e~~vtv~~~~~~~  150 (329)
T COG0714         106 GPLFAAVRVILLLDEINRA-----------------------------------PPEVQNALLEALEERQVTVPGLTTIR  150 (329)
T ss_pred             CCcccccceEEEEeccccC-----------------------------------CHHHHHHHHHHHhCcEEEECCcCCcC
Confidence                11  39999999974                                   234677777777641       1 11


Q ss_pred             CCCceEEEEecC-----CCCCCChhhhcCCCceeEEEecCC-CHHHHHHHHHHhcC
Q 037859          343 SGEERIIVFTTN-----YVDKLDPALIRRGRMDKHIEMSYC-CFEAFKVLAKNYLD  392 (504)
Q Consensus       343 ~~~~~ivI~tTN-----~~e~Ld~ALlRpGR~d~~I~~~~p-~~e~~~~i~~~~l~  392 (504)
                      -....++|+|+|     ....|++|+++  ||-..+.++|| ..++...+......
T Consensus       151 ~~~~f~viaT~Np~e~~g~~~l~eA~ld--Rf~~~~~v~yp~~~~e~~~i~~~~~~  204 (329)
T COG0714         151 LPPPFIVIATQNPGEYEGTYPLPEALLD--RFLLRIYVDYPDSEEEERIILARVGG  204 (329)
T ss_pred             CCCCCEEEEccCccccCCCcCCCHHHHh--hEEEEEecCCCCchHHHHHHHHhCcc
Confidence            224467888889     44568999999  99999999999 55555555555443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.38  E-value=5.7e-12  Score=128.07  Aligned_cols=151  Identities=20%  Similarity=0.224  Sum_probs=106.3

Q ss_pred             ecCCCccccccccChhHHHHHHHhhc----ccccccCCCCCcHHHHHHHHHHhcCC-----cEEEEeccccCChHHHHHH
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDLK----KGYLLYGPPGTGKSTMIAAMANFLNY-----DVYDLELTTVQDNSELRSL  271 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l~----rg~LL~GPpGtGKTsla~aiA~~l~~-----~i~~l~~~~~~~~~~l~~l  271 (504)
                      .-..|.+|+++++.++.++.+...+.    ..+|||||||||||++++++++.+..     .++.++.+.......++..
T Consensus         9 ~kyrP~~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~~~~~   88 (319)
T PRK00440          9 EKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGIDVIRNK   88 (319)
T ss_pred             hhhCCCcHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccchHHHHHH
Confidence            45578999999999999999988883    24899999999999999999998732     3444443332222222222


Q ss_pred             H----Hhc----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccC
Q 037859          272 L----IDT----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS  343 (504)
Q Consensus       272 ~----~~~----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~  343 (504)
                      +    ...    ..+.+|+|||+|.+.                                   ......|+..++...   
T Consensus        89 i~~~~~~~~~~~~~~~vviiDe~~~l~-----------------------------------~~~~~~L~~~le~~~---  130 (319)
T PRK00440         89 IKEFARTAPVGGAPFKIIFLDEADNLT-----------------------------------SDAQQALRRTMEMYS---  130 (319)
T ss_pred             HHHHHhcCCCCCCCceEEEEeCcccCC-----------------------------------HHHHHHHHHHHhcCC---
Confidence            2    111    235699999999862                                   112345666665432   


Q ss_pred             CCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          344 GEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       344 ~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                       ....+|+++|.+..+.+++.+  |+. .++|+.++.++...+++.++..
T Consensus       131 -~~~~lIl~~~~~~~l~~~l~s--r~~-~~~~~~l~~~ei~~~l~~~~~~  176 (319)
T PRK00440        131 -QNTRFILSCNYSSKIIDPIQS--RCA-VFRFSPLKKEAVAERLRYIAEN  176 (319)
T ss_pred             -CCCeEEEEeCCccccchhHHH--Hhh-eeeeCCCCHHHHHHHHHHHHHH
Confidence             235677888888888889988  774 6999999999988888877653

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.38  E-value=5.3e-12  Score=131.64  Aligned_cols=160  Identities=24%  Similarity=0.293  Sum_probs=103.8

Q ss_pred             ccc-cccChhHHHHHHHhh----------------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC
Q 037859          208 FDT-LAMETKKKEEIKKDL----------------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD  264 (504)
Q Consensus       208 f~~-~~~~~~~k~~i~~~l----------------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  264 (504)
                      ++. ++++++.|+.+...+                      +..+||+||||||||++|+++|..++.++..++++.+..
T Consensus        75 L~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L~~  154 (413)
T TIGR00382        75 LDEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTE  154 (413)
T ss_pred             hcceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhccc
Confidence            444 467777777665433                      235999999999999999999999999999888765421


Q ss_pred             --------hHHHHHHHHh------ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHH
Q 037859          265 --------NSELRSLLID------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLS  330 (504)
Q Consensus       265 --------~~~l~~l~~~------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls  330 (504)
                              ...+..++..      ...++||||||||.+..   +++.                  .+...+.....+.+
T Consensus       155 ~gyvG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~---~~~~------------------~s~~~dvsg~~vq~  213 (413)
T TIGR00382       155 AGYVGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISR---KSEN------------------PSITRDVSGEGVQQ  213 (413)
T ss_pred             cccccccHHHHHHHHHHhCcccHHhcccceEEecccchhch---hhcc------------------ccccccccchhHHH
Confidence                    1223344332      23678999999998642   1100                  00011112234778


Q ss_pred             HHhhhhcCcccc---C------CCceEEEEecCCC---------------------------C-----------------
Q 037859          331 GLLNFIDGLWSA---S------GEERIIVFTTNYV---------------------------D-----------------  357 (504)
Q Consensus       331 ~lL~~lDg~~~~---~------~~~~ivI~tTN~~---------------------------e-----------------  357 (504)
                      .||..|||....   .      ..+.++|+|+|-.                           +                 
T Consensus       214 ~LL~iLeG~~~~v~~~~gr~~~~~~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~  293 (413)
T TIGR00382       214 ALLKIIEGTVANVPPQGGRKHPYQEFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEP  293 (413)
T ss_pred             HHHHHhhccceecccCCCccccCCCeEEEEcCCceeeecccccChHHHHHHHhhhccccccccccccchhhHHHHHHHHH
Confidence            899999876321   1      1345789998861                           0                 


Q ss_pred             ------CCChhhhcCCCceeEEEecCCCHHHHHHHHHHh
Q 037859          358 ------KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       358 ------~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~  390 (504)
                            .+.|+|+-  |+|..+.|...+.+++..|+..-
T Consensus       294 ~dl~~~g~~PEflg--Rld~Iv~f~pL~~~~L~~Il~~~  330 (413)
T TIGR00382       294 EDLVKFGLIPEFIG--RLPVIATLEKLDEEALIAILTKP  330 (413)
T ss_pred             HHHHHHhhHHHHhC--CCCeEeecCCCCHHHHHHHHHHH
Confidence                  02355555  88888888888888888887654

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.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.37  E-value=5.4e-12  Score=128.53  Aligned_cols=152  Identities=22%  Similarity=0.284  Sum_probs=103.1

Q ss_pred             CCccccccccChhHHHHHHHhh--c--ccccccCCCCCcHHHHHHHHHHhc-------CCcEEEE------ecc-----c
Q 037859          204 HPATFDTLAMETKKKEEIKKDL--K--KGYLLYGPPGTGKSTMIAAMANFL-------NYDVYDL------ELT-----T  261 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l--~--rg~LL~GPpGtGKTsla~aiA~~l-------~~~i~~l------~~~-----~  261 (504)
                      .|.+|+.+++++..++.++-.+  +  .++||+||||||||++|+++|+.+       +.++-..      ++.     .
T Consensus         3 ~~~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~~~~~~~~~~~~~~   82 (334)
T PRK13407          3 KPFPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWAHVSSTT   82 (334)
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcccCCcccccccCCc
Confidence            4677999999999998777544  3  469999999999999999999988       3221110      000     0


Q ss_pred             -------------------cCChHHHHHHHHh-----------ccCCeEEEEecccccccccccccccccccccccccCc
Q 037859          262 -------------------VQDNSELRSLLID-----------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNP  311 (504)
Q Consensus       262 -------------------~~~~~~l~~l~~~-----------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~  311 (504)
                                         +.+.-.+...+..           .....+||||||+.+                      
T Consensus        83 ~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~~A~~GiL~lDEInrl----------------------  140 (334)
T PRK13407         83 MIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYIDEVNLL----------------------  140 (334)
T ss_pred             ccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceEEcCCCeEEecChHhC----------------------
Confidence                               0111112222111           124569999999985                      


Q ss_pred             ccccccccCCCcchhhHHHHHhhhhcC---------ccccCCCceEEEEecCCCC-CCChhhhcCCCceeEEEecCCCH-
Q 037859          312 IEKKEKEDGGSKKSKVTLSGLLNFIDG---------LWSASGEERIIVFTTNYVD-KLDPALIRRGRMDKHIEMSYCCF-  380 (504)
Q Consensus       312 ~~~~~~~~~~~~~~~~~ls~lL~~lDg---------~~~~~~~~~ivI~tTN~~e-~Ld~ALlRpGR~d~~I~~~~p~~-  380 (504)
                                   +..+++.|++.|+.         .........++|+|+|..+ .++++|+.  ||.+.|.+++|.. 
T Consensus       141 -------------~~~~q~~Lle~mee~~v~v~r~G~~~~~p~rfiviAt~NP~e~~l~~aLld--RF~~~v~v~~~~~~  205 (334)
T PRK13407        141 -------------EDHIVDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEGELRPQLLD--RFGLSVEVRSPRDV  205 (334)
T ss_pred             -------------CHHHHHHHHHHHHcCCeEEEECCeEEecCCCEEEEecCCcccCCCCHHHHh--hcceEEEcCCCCcH
Confidence                         23466777777742         2111234467888888755 69999999  9999999999977 


Q ss_pred             HHHHHHHHHhcC
Q 037859          381 EAFKVLAKNYLD  392 (504)
Q Consensus       381 e~~~~i~~~~l~  392 (504)
                      +++.+|+++...
T Consensus       206 ~e~~~il~~~~~  217 (334)
T PRK13407        206 ETRVEVIRRRDA  217 (334)
T ss_pred             HHHHHHHHHhhc
Confidence            888899887543

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.37  E-value=2.3e-11  Score=125.75  Aligned_cols=148  Identities=18%  Similarity=0.242  Sum_probs=112.3

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC-------------------------
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY-------------------------  252 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~-------------------------  252 (504)
                      .||+.|+.+++++..++.+...+     +.+|||+||+|+||+++|.++|+.+-+                         
T Consensus        13 ~~P~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c   92 (365)
T PRK07471         13 PHPRETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVA   92 (365)
T ss_pred             CCCCchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHH
Confidence            59999999999999999999888     567999999999999999999998732                         


Q ss_pred             ---------cEEEEecc--cc-------CChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccc
Q 037859          253 ---------DVYDLELT--TV-------QDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEE  308 (504)
Q Consensus       253 ---------~i~~l~~~--~~-------~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~  308 (504)
                               +++.+...  ..       -.-++++.+....      ..+-|++|||+|.+                   
T Consensus        93 ~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m-------------------  153 (365)
T PRK07471         93 RRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEM-------------------  153 (365)
T ss_pred             HHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhc-------------------
Confidence                     12222211  10       0124455554332      35679999999985                   


Q ss_pred             cCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHH
Q 037859          309 KNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAK  388 (504)
Q Consensus       309 ~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~  388 (504)
                                      +....+.||..++..    ....++|++|+.++.+.|.+++  |+ .+|.|+.++.++...++.
T Consensus       154 ----------------~~~aanaLLK~LEep----p~~~~~IL~t~~~~~llpti~S--Rc-~~i~l~~l~~~~i~~~L~  210 (365)
T PRK07471        154 ----------------NANAANALLKVLEEP----PARSLFLLVSHAPARLLPTIRS--RC-RKLRLRPLAPEDVIDALA  210 (365)
T ss_pred             ----------------CHHHHHHHHHHHhcC----CCCeEEEEEECCchhchHHhhc--cc-eEEECCCCCHHHHHHHHH
Confidence                            234677888888753    3457888899999999999888  88 689999999999998888


Q ss_pred             HhcC
Q 037859          389 NYLD  392 (504)
Q Consensus       389 ~~l~  392 (504)
                      ....
T Consensus       211 ~~~~  214 (365)
T PRK07471        211 AAGP  214 (365)
T ss_pred             Hhcc
Confidence            7653

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

Probab=99.36  E-value=3.1e-12  Score=127.16  Aligned_cols=143  Identities=21%  Similarity=0.319  Sum_probs=98.4

Q ss_pred             CCccccccccChhHH------HHHHHhh-cccccccCCCCCcHHHHHHHHHHhcCCc-EEEEeccccC-ChHHHHHHHHh
Q 037859          204 HPATFDTLAMETKKK------EEIKKDL-KKGYLLYGPPGTGKSTMIAAMANFLNYD-VYDLELTTVQ-DNSELRSLLID  274 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k------~~i~~~l-~rg~LL~GPpGtGKTsla~aiA~~l~~~-i~~l~~~~~~-~~~~l~~l~~~  274 (504)
                      +|+++++++++.+..      ..+++.= -..++|+||||||||+||+.||+....+ +..+.++... ...++|.+|.+
T Consensus       133 RPktL~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~  212 (554)
T KOG2028|consen  133 RPKTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQ  212 (554)
T ss_pred             CcchHHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHH
Confidence            577788877776432      2222211 3458999999999999999999987655 3345555544 34678888877


Q ss_pred             c-------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCce
Q 037859          275 T-------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEER  347 (504)
Q Consensus       275 ~-------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~  347 (504)
                      +       .++.|||||||+.+                                   ++.....||-.++      .+.+
T Consensus       213 aq~~~~l~krkTilFiDEiHRF-----------------------------------NksQQD~fLP~VE------~G~I  251 (554)
T KOG2028|consen  213 AQNEKSLTKRKTILFIDEIHRF-----------------------------------NKSQQDTFLPHVE------NGDI  251 (554)
T ss_pred             HHHHHhhhcceeEEEeHHhhhh-----------------------------------hhhhhhcccceec------cCce
Confidence            5       47899999999985                                   1112233444432      2457


Q ss_pred             EEEEec--CCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHh
Q 037859          348 IIVFTT--NYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       348 ivI~tT--N~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~  390 (504)
                      ++|++|  |..-.|..||+.  |+ ..+.+.....+....|+.+-
T Consensus       252 ~lIGATTENPSFqln~aLlS--RC-~VfvLekL~~n~v~~iL~ra  293 (554)
T KOG2028|consen  252 TLIGATTENPSFQLNAALLS--RC-RVFVLEKLPVNAVVTILMRA  293 (554)
T ss_pred             EEEecccCCCccchhHHHHh--cc-ceeEeccCCHHHHHHHHHHH
Confidence            888865  566689999999  66 45667777788888887763

>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=99.36  E-value=6.7e-12  Score=110.99  Aligned_cols=123  Identities=30%  Similarity=0.414  Sum_probs=83.6

Q ss_pred             HHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHH-----------HHHHhccCC
Q 037859          217 KKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELR-----------SLLIDTSSK  278 (504)
Q Consensus       217 ~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~-----------~l~~~~~~~  278 (504)
                      ..+.+...+    .+.++++||||||||++++.+++.+   +.+++.+++..........           ........+
T Consensus         6 ~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (151)
T cd00009           6 AIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKP   85 (151)
T ss_pred             HHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhhhHhHHHHhhccCCC
Confidence            344444444    4679999999999999999999998   8899999887764332222           112223468


Q ss_pred             eEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc--CCCceEEEEecCCC
Q 037859          279 SILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA--SGEERIIVFTTNYV  356 (504)
Q Consensus       279 ~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~--~~~~~ivI~tTN~~  356 (504)
                      .+|+|||++.+.                                   ......++..+......  ...+..+|++||..
T Consensus        86 ~~lilDe~~~~~-----------------------------------~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~  130 (151)
T cd00009          86 GVLFIDEIDSLS-----------------------------------RGAQNALLRVLETLNDLRIDRENVRVIGATNRP  130 (151)
T ss_pred             eEEEEeChhhhh-----------------------------------HHHHHHHHHHHHhcCceeccCCCeEEEEecCcc
Confidence            999999999741                                   11223444444333211  12457888899887


Q ss_pred             C--CCChhhhcCCCceeEEEec
Q 037859          357 D--KLDPALIRRGRMDKHIEMS  376 (504)
Q Consensus       357 e--~Ld~ALlRpGR~d~~I~~~  376 (504)
                      .  .+++.+..  |++.+|.++
T Consensus       131 ~~~~~~~~~~~--r~~~~i~~~  150 (151)
T cd00009         131 LLGDLDRALYD--RLDIRIVIP  150 (151)
T ss_pred             ccCCcChhHHh--hhccEeecC
Confidence            7  78889888  999888876

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.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.36  E-value=2.2e-12  Score=137.68  Aligned_cols=182  Identities=16%  Similarity=0.267  Sum_probs=107.0

Q ss_pred             ecCCCccccccccChhHH---HHHHHhh------cccccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccccCCh-
Q 037859          201 FFEHPATFDTLAMETKKK---EEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDN-  265 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k---~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~-  265 (504)
                      ++....+|++++..+.-+   .......      .++++||||||||||+|++|+|+++     +..++++++..+... 
T Consensus       114 ~l~~~~tfd~fv~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~  193 (450)
T PRK00149        114 PLNPKYTFDNFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDF  193 (450)
T ss_pred             CCCCCCcccccccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHH
Confidence            455556788865433222   1111111      2458999999999999999999987     556888877654210 


Q ss_pred             -H-----HHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          266 -S-----ELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       266 -~-----~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                       .     ....+........+|+|||||.+.   +++                              .+...|+..++.+
T Consensus       194 ~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~---~~~------------------------------~~~~~l~~~~n~l  240 (450)
T PRK00149        194 VNALRNNTMEEFKEKYRSVDVLLIDDIQFLA---GKE------------------------------RTQEEFFHTFNAL  240 (450)
T ss_pred             HHHHHcCcHHHHHHHHhcCCEEEEehhhhhc---CCH------------------------------HHHHHHHHHHHHH
Confidence             0     111222233467799999999852   111                              1223444444444


Q ss_pred             cccCCCceEEEEecCCCCC---CChhhhcCCCce--eEEEecCCCHHHHHHHHHHhcCcCCcchHH-HHhcCccCCCCCH
Q 037859          340 WSASGEERIIVFTTNYVDK---LDPALIRRGRMD--KHIEMSYCCFEAFKVLAKNYLDIDSHELYA-VIESMPAETNMTP  413 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e~---Ld~ALlRpGR~d--~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~-~i~~l~~~~~~s~  413 (504)
                      ...  +..+||.++..+..   ++++|..  ||.  ..+++..|+.+++..|++.........+.+ .++.++....=+.
T Consensus       241 ~~~--~~~iiits~~~p~~l~~l~~~l~S--Rl~~gl~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~  316 (450)
T PRK00149        241 HEA--GKQIVLTSDRPPKELPGLEERLRS--RFEWGLTVDIEPPDLETRIAILKKKAEEEGIDLPDEVLEFIAKNITSNV  316 (450)
T ss_pred             HHC--CCcEEEECCCCHHHHHHHHHHHHh--HhcCCeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHcCcCCCH
Confidence            321  22344444444443   7799998  885  689999999999999999887543222222 2344444444445


Q ss_pred             HHHHHh
Q 037859          414 ADVAEN  419 (504)
Q Consensus       414 a~i~~~  419 (504)
                      +++.+.
T Consensus       317 R~l~~~  322 (450)
T PRK00149        317 RELEGA  322 (450)
T ss_pred             HHHHHH
Confidence            554443

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.36  E-value=4.5e-12  Score=122.89  Aligned_cols=146  Identities=13%  Similarity=0.140  Sum_probs=92.2

Q ss_pred             ecCCCccccccccC--hhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHH
Q 037859          201 FFEHPATFDTLAME--TKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRS  270 (504)
Q Consensus       201 ~~~~p~~f~~~~~~--~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~  270 (504)
                      |...|.+|+++...  ......+....     .++++|+||||||||+|++++++++   +.+++.+++.....      
T Consensus        10 ~~~~~~~~d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~~------   83 (227)
T PRK08903         10 GPPPPPTFDNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPLL------   83 (227)
T ss_pred             CCCChhhhcccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhHH------
Confidence            45556678887633  23333332222     4579999999999999999999875   66788887765421      


Q ss_pred             HHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEE
Q 037859          271 LLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIV  350 (504)
Q Consensus       271 l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI  350 (504)
                      .+.......+|+|||+|.+-                                ..   ....|+..++....  .+..++|
T Consensus        84 ~~~~~~~~~~liiDdi~~l~--------------------------------~~---~~~~L~~~~~~~~~--~~~~~vl  126 (227)
T PRK08903         84 AFDFDPEAELYAVDDVERLD--------------------------------DA---QQIALFNLFNRVRA--HGQGALL  126 (227)
T ss_pred             HHhhcccCCEEEEeChhhcC--------------------------------ch---HHHHHHHHHHHHHH--cCCcEEE
Confidence            12233456799999999851                                01   12233444433321  2234566


Q ss_pred             EecCCCC---CCChhhhcCCCc--eeEEEecCCCHHHHHHHHHHhc
Q 037859          351 FTTNYVD---KLDPALIRRGRM--DKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       351 ~tTN~~e---~Ld~ALlRpGR~--d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      +|++.+.   .+.+.|..  |+  ...|+++.|+.+....++..+.
T Consensus       127 ~~~~~~~~~~~l~~~L~s--r~~~~~~i~l~pl~~~~~~~~l~~~~  170 (227)
T PRK08903        127 VAGPAAPLALPLREDLRT--RLGWGLVYELKPLSDADKIAALKAAA  170 (227)
T ss_pred             EeCCCCHHhCCCCHHHHH--HHhcCeEEEecCCCHHHHHHHHHHHH
Confidence            6665432   35678887  66  4799999999988777776543

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.36  E-value=3.2e-11  Score=122.79  Aligned_cols=143  Identities=14%  Similarity=0.246  Sum_probs=108.6

Q ss_pred             cccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC--------cEEEEec-ccc-CChHHHHHH
Q 037859          207 TFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY--------DVYDLEL-TTV-QDNSELRSL  271 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~--------~i~~l~~-~~~-~~~~~l~~l  271 (504)
                      +|+++++++..++.+...+     +..||||||+|+|||++|+++|..+.+        +++.+.. ... ...+.++.+
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir~~   81 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIRNI   81 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHHHH
Confidence            5888999999999988887     667999999999999999999997733        3334433 111 133567766


Q ss_pred             HHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCC
Q 037859          272 LIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGE  345 (504)
Q Consensus       272 ~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~  345 (504)
                      ....      ...-|++|||+|.+                                   +....+.||..|+..    ++
T Consensus        82 ~~~~~~~p~~~~~kv~iI~~ad~m-----------------------------------~~~a~naLLK~LEep----p~  122 (313)
T PRK05564         82 IEEVNKKPYEGDKKVIIIYNSEKM-----------------------------------TEQAQNAFLKTIEEP----PK  122 (313)
T ss_pred             HHHHhcCcccCCceEEEEechhhc-----------------------------------CHHHHHHHHHHhcCC----CC
Confidence            6533      25679999999985                                   223567889988853    35


Q ss_pred             ceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          346 ERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       346 ~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      +.++|++|+.++.|.|++..  |+ .+++|..|+.++....+...+
T Consensus       123 ~t~~il~~~~~~~ll~TI~S--Rc-~~~~~~~~~~~~~~~~l~~~~  165 (313)
T PRK05564        123 GVFIILLCENLEQILDTIKS--RC-QIYKLNRLSKEEIEKFISYKY  165 (313)
T ss_pred             CeEEEEEeCChHhCcHHHHh--hc-eeeeCCCcCHHHHHHHHHHHh
Confidence            57888888889999999999  87 589999999998887776554

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

Probab=99.35  E-value=1.4e-12  Score=143.33  Aligned_cols=178  Identities=20%  Similarity=0.359  Sum_probs=121.1

Q ss_pred             cccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCCh-------
Q 037859          207 TFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQDN-------  265 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~~-------  265 (504)
                      .++-|++.++..+++++.|    ++.-+|.|+||+|||.++..+|...          +..++.+|++.+..+       
T Consensus       168 klDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAGakyRGeF  247 (786)
T COG0542         168 KLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKYRGEF  247 (786)
T ss_pred             CCCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhccccccCcH
Confidence            4778899999999999998    6779999999999999999999865          678999999887433       


Q ss_pred             -HHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc
Q 037859          266 -SELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA  342 (504)
Q Consensus       266 -~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~  342 (504)
                       ++|+.++.+..  .+.||||||||.+..   ...                     ..+  . ..-.+.+|...     .
T Consensus       248 EeRlk~vl~ev~~~~~vILFIDEiHtiVG---AG~---------------------~~G--~-a~DAaNiLKPa-----L  295 (786)
T COG0542         248 EERLKAVLKEVEKSKNVILFIDEIHTIVG---AGA---------------------TEG--G-AMDAANLLKPA-----L  295 (786)
T ss_pred             HHHHHHHHHHHhcCCCeEEEEechhhhcC---CCc---------------------ccc--c-ccchhhhhHHH-----H
Confidence             45666665542  489999999999753   210                     001  1 22344455432     2


Q ss_pred             CCCceEEEEecC------CCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc--CCcc--hHHHHhcCccCCCCC
Q 037859          343 SGEERIIVFTTN------YVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI--DSHE--LYAVIESMPAETNMT  412 (504)
Q Consensus       343 ~~~~~ivI~tTN------~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~--~~~~--~~~~i~~l~~~~~~s  412 (504)
                      ..++.-+|++|.      +.++ |+||-|  || ..|.+..|+.++-..|++..-..  .+|.  ..+  +.+.....+|
T Consensus       296 ARGeL~~IGATT~~EYRk~iEK-D~AL~R--RF-Q~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D--~Al~aAv~LS  369 (786)
T COG0542         296 ARGELRCIGATTLDEYRKYIEK-DAALER--RF-QKVLVDEPSVEDTIAILRGLKERYEAHHGVRITD--EALVAAVTLS  369 (786)
T ss_pred             hcCCeEEEEeccHHHHHHHhhh-chHHHh--cC-ceeeCCCCCHHHHHHHHHHHHHHHHHccCceecH--HHHHHHHHHH
Confidence            234556666553      5555 999999  99 68999999999888888754321  1122  122  2222234566


Q ss_pred             HHHHHHhhCC
Q 037859          413 PADVAENLMP  422 (504)
Q Consensus       413 ~a~i~~~l~~  422 (504)
                      ..+|.+..+|
T Consensus       370 ~RYI~dR~LP  379 (786)
T COG0542         370 DRYIPDRFLP  379 (786)
T ss_pred             HhhcccCCCC
Confidence            6677666665

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

Probab=99.34  E-value=4.1e-12  Score=137.25  Aligned_cols=182  Identities=27%  Similarity=0.369  Sum_probs=132.2

Q ss_pred             ecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------CChHHHHHHHHh
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------QDNSELRSLLID  274 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------~~~~~l~~l~~~  274 (504)
                      |..+|..|..+...+          ++|++++||||||||++++++|+. +.....++....      ....+++.+|..
T Consensus         3 ~~~~~~~~~~~~~~~----------~~~v~~~g~~~~~~t~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   71 (494)
T COG0464           3 PLKEPELFKKLGIEP----------PKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGESELRLRELFEE   71 (494)
T ss_pred             CccCHHHHHHhCCCC----------CCCceeeCCCCCchhHHHHHHHhc-cCcccccCcchhhhhhhhHHHHHHHHHHHH
Confidence            567777788888887          899999999999999999999999 444443433332      123556667766


Q ss_pred             cc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEe
Q 037859          275 TS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFT  352 (504)
Q Consensus       275 ~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~t  352 (504)
                      +.  .|+|+++||+|.+.+....                        .........+++++..+|++.  .+. ++++..
T Consensus        72 a~~~~~~ii~~d~~~~~~~~~~~------------------------~~~~~~~~v~~~l~~~~d~~~--~~~-v~~~~~  124 (494)
T COG0464          72 AEKLAPSIIFIDEIDALAPKRSS------------------------DQGEVERRVVAQLLALMDGLK--RGQ-VIVIGA  124 (494)
T ss_pred             HHHhCCCeEeechhhhcccCccc------------------------cccchhhHHHHHHHHhccccc--CCc-eEEEee
Confidence            53  5799999999997532221                        123445678999999999996  445 888889


Q ss_pred             cCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCcc-CCCCCHHHHHHhh
Q 037859          353 TNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPA-ETNMTPADVAENL  420 (504)
Q Consensus       353 TN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~a~i~~~l  420 (504)
                      ||.+..+|+++.+||||+..+.+..|+...+..+..................++. ..+++.+++..++
T Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ei~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~l~  193 (494)
T COG0464         125 TNRPDGLDPAKRRPGRFDREIEVNLPDEAGRLEILQIHTRLMFLGPPGTGKTLAARTVGKSGADLGALA  193 (494)
T ss_pred             cCCccccChhHhCccccceeeecCCCCHHHHHHHHHHHHhcCCCcccccHHHHHHhcCCccHHHHHHHH
Confidence            9999999999999999999999999999988887776543211111111222333 3478888887665

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.34  E-value=3.2e-12  Score=134.69  Aligned_cols=155  Identities=18%  Similarity=0.277  Sum_probs=94.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccccCCh-------HHHHHHHHhccCCeEEEEecccccccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDN-------SELRSLLIDTSSKSILVIEDIDCSLDLTG  294 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~-------~~l~~l~~~~~~~~Il~iDeiD~~~~~~~  294 (504)
                      .+++||||||||||+|++|+|+++     +..++++++..+...       ..+...........+|+|||||.+.   +
T Consensus       137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~---~  213 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALRNNKMEEFKEKYRSVDLLLIDDIQFLA---G  213 (405)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHHcCCHHHHHHHHHhCCEEEEehhhhhc---C
Confidence            458999999999999999999987     567888876543110       0111111222346799999999852   1


Q ss_pred             cccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecC-CCC---CCChhhhcCCCce
Q 037859          295 QREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTN-YVD---KLDPALIRRGRMD  370 (504)
Q Consensus       295 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN-~~e---~Ld~ALlRpGR~d  370 (504)
                      ..                              .+...|+..++.+...  + ..+|+|+| .+.   .+++.|..  ||.
T Consensus       214 ~~------------------------------~~~~~l~~~~n~~~~~--~-~~iiits~~~p~~l~~l~~~l~S--Rl~  258 (405)
T TIGR00362       214 KE------------------------------RTQEEFFHTFNALHEN--G-KQIVLTSDRPPKELPGLEERLRS--RFE  258 (405)
T ss_pred             CH------------------------------HHHHHHHHHHHHHHHC--C-CCEEEecCCCHHHHhhhhhhhhh--hcc
Confidence            10                              1223344444443221  2 23445554 444   46788998  885


Q ss_pred             --eEEEecCCCHHHHHHHHHHhcCcCCcchHH-HHhcCccCCCCCHHHHHHh
Q 037859          371 --KHIEMSYCCFEAFKVLAKNYLDIDSHELYA-VIESMPAETNMTPADVAEN  419 (504)
Q Consensus       371 --~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~-~i~~l~~~~~~s~a~i~~~  419 (504)
                        ..+.++.|+.++|..|++..+......+.+ .++.++....-+.+++.+.
T Consensus       259 ~g~~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~r~l~~~  310 (405)
T TIGR00362       259 WGLVVDIEPPDLETRLAILQKKAEEEGLELPDEVLEFIAKNIRSNVRELEGA  310 (405)
T ss_pred             CCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHH
Confidence              579999999999999999887543333222 2344444444455555443

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).

>PRK08727 hypothetical protein; Validated

Probab=99.33  E-value=1.3e-11  Score=120.40  Aligned_cols=151  Identities=20%  Similarity=0.243  Sum_probs=98.1

Q ss_pred             ecCCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHHH
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSLL  272 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~  272 (504)
                      ++....+|++++..+.-.-..+..+     ...++||||+|||||+|+.|+++++   +..+.++++....  ..+...+
T Consensus        11 ~~~~~~~f~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~--~~~~~~~   88 (233)
T PRK08727         11 RYPSDQRFDSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAA--GRLRDAL   88 (233)
T ss_pred             CCCCcCChhhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhh--hhHHHHH
Confidence            3444457888876664322222222     3458999999999999999997765   5666677655432  3345556


Q ss_pred             HhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEe
Q 037859          273 IDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFT  352 (504)
Q Consensus       273 ~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~t  352 (504)
                      ....+..+|+|||||.+.   +.                           ......+-.++|.+-.     . +.-+|+|
T Consensus        89 ~~l~~~dlLiIDDi~~l~---~~---------------------------~~~~~~lf~l~n~~~~-----~-~~~vI~t  132 (233)
T PRK08727         89 EALEGRSLVALDGLESIA---GQ---------------------------REDEVALFDFHNRARA-----A-GITLLYT  132 (233)
T ss_pred             HHHhcCCEEEEeCccccc---CC---------------------------hHHHHHHHHHHHHHHH-----c-CCeEEEE
Confidence            666677899999999852   11                           1122234445554321     1 2335555


Q ss_pred             cC-CCCCC---ChhhhcCCCc--eeEEEecCCCHHHHHHHHHHhc
Q 037859          353 TN-YVDKL---DPALIRRGRM--DKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       353 TN-~~e~L---d~ALlRpGR~--d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      +| .+..+   +|+|.+  ||  ..++.++.|+.+++..+++...
T Consensus       133 s~~~p~~l~~~~~dL~S--Rl~~~~~~~l~~~~~e~~~~iL~~~a  175 (233)
T PRK08727        133 ARQMPDGLALVLPDLRS--RLAQCIRIGLPVLDDVARAAVLRERA  175 (233)
T ss_pred             CCCChhhhhhhhHHHHH--HHhcCceEEecCCCHHHHHHHHHHHH
Confidence            55 56544   799999  85  5789999999999999998754

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.33  E-value=1.6e-11  Score=115.52  Aligned_cols=123  Identities=23%  Similarity=0.291  Sum_probs=90.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC------------------------cEEEEecccc-CChHHHHHHHHhc-----
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DVYDLELTTV-QDNSELRSLLIDT-----  275 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i~~l~~~~~-~~~~~l~~l~~~~-----  275 (504)
                      +..||||||||+|||++++++|+.+..                        ++..+..... ...+.++.+....     
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i~~i~~~~~~~~~   93 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQVRELVEFLSRTPQ   93 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHHHHHHHHHccCcc
Confidence            667999999999999999999998743                        2333333221 1235565555443     


Q ss_pred             -cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecC
Q 037859          276 -SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTN  354 (504)
Q Consensus       276 -~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN  354 (504)
                       ..+.|++|||+|.+-                                   ....+.||..|+..    +...++|++||
T Consensus        94 ~~~~kviiide~~~l~-----------------------------------~~~~~~Ll~~le~~----~~~~~~il~~~  134 (188)
T TIGR00678        94 ESGRRVVIIEDAERMN-----------------------------------EAAANALLKTLEEP----PPNTLFILITP  134 (188)
T ss_pred             cCCeEEEEEechhhhC-----------------------------------HHHHHHHHHHhcCC----CCCeEEEEEEC
Confidence             246799999999861                                   22456788888753    24467888888


Q ss_pred             CCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHh
Q 037859          355 YVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       355 ~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~  390 (504)
                      .+..|.+++.+  |+ ..+++..|+.++...+++..
T Consensus       135 ~~~~l~~~i~s--r~-~~~~~~~~~~~~~~~~l~~~  167 (188)
T TIGR00678       135 SPEKLLPTIRS--RC-QVLPFPPLSEEALLQWLIRQ  167 (188)
T ss_pred             ChHhChHHHHh--hc-EEeeCCCCCHHHHHHHHHHc
Confidence            88999999999  77 58999999999988877665

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.

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.33  E-value=3.3e-11  Score=123.93  Aligned_cols=146  Identities=16%  Similarity=0.233  Sum_probs=108.2

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc------------------------
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD------------------------  253 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~------------------------  253 (504)
                      .||+.|+.++++.+.++.+...+     +.++||+||+|+|||++|+++|+.+.+.                        
T Consensus        17 ~~P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i~   96 (351)
T PRK09112         17 PSPSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQIA   96 (351)
T ss_pred             CCCCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHHH
Confidence            59999999999999999999988     4469999999999999999999988541                        


Q ss_pred             ------EEEEecc--c-------cCChHHHHHHH---Hhc---cCCeEEEEecccccccccccccccccccccccccCcc
Q 037859          254 ------VYDLELT--T-------VQDNSELRSLL---IDT---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPI  312 (504)
Q Consensus       254 ------i~~l~~~--~-------~~~~~~l~~l~---~~~---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~  312 (504)
                            ++.+...  .       .-..+.++.+.   ...   ...-|++|||+|.+                       
T Consensus        97 ~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l-----------------------  153 (351)
T PRK09112         97 QGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDM-----------------------  153 (351)
T ss_pred             cCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhc-----------------------
Confidence                  1112110  0       00123444433   222   24579999999986                       


Q ss_pred             cccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHh
Q 037859          313 EKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       313 ~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~  390 (504)
                                  +....+.||..++..    ....++|+.|+.++.+.|.++.  |+ .++.|+.++.++...++...
T Consensus       154 ------------~~~aanaLLk~LEEp----p~~~~fiLit~~~~~llptIrS--Rc-~~i~l~pl~~~~~~~~L~~~  212 (351)
T PRK09112        154 ------------NRNAANAILKTLEEP----PARALFILISHSSGRLLPTIRS--RC-QPISLKPLDDDELKKALSHL  212 (351)
T ss_pred             ------------CHHHHHHHHHHHhcC----CCCceEEEEECChhhccHHHHh--hc-cEEEecCCCHHHHHHHHHHh
Confidence                        233567788888763    2346777778889999999988  88 69999999999999888874

>PHA02244 ATPase-like protein

Probab=99.33  E-value=2.3e-11  Score=123.85  Aligned_cols=116  Identities=22%  Similarity=0.310  Sum_probs=79.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccc----c----CChHHHH--HHHHhccCCeEEEEeccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT----V----QDNSELR--SLLIDTSSKSILVIEDIDCSLDLTGQ  295 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~----~----~~~~~l~--~l~~~~~~~~Il~iDeiD~~~~~~~~  295 (504)
                      +..+||+||||||||++|++||..++.+++.++...    +    .....+.  .++.......+++|||||.+-     
T Consensus       119 ~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~~g~~~dgpLl~A~~~GgvLiLDEId~a~-----  193 (383)
T PHA02244        119 NIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDANGKFHETPFYEAFKKGGLFFIDEIDASI-----  193 (383)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccccccccchHHHHHhhcCCEEEEeCcCcCC-----
Confidence            677999999999999999999999999999886321    0    0000111  233334577899999999751     


Q ss_pred             ccccccccccccccCcccccccccCCCcchhhHHHHHhhhhc--------CccccCCCceEEEEecCCC-----------
Q 037859          296 REKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID--------GLWSASGEERIIVFTTNYV-----------  356 (504)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD--------g~~~~~~~~~ivI~tTN~~-----------  356 (504)
                                                    ..++..|+..+|        +.. ....+..+|+|+|..           
T Consensus       194 ------------------------------p~vq~~L~~lLd~r~l~l~g~~i-~~h~~FRlIATsN~~~~G~~~~y~G~  242 (383)
T PHA02244        194 ------------------------------PEALIIINSAIANKFFDFADERV-TAHEDFRVISAGNTLGKGADHIYVAR  242 (383)
T ss_pred             ------------------------------HHHHHHHHHHhccCeEEecCcEE-ecCCCEEEEEeeCCCccCcccccCCC
Confidence                                          112333333332        221 123456899999973           


Q ss_pred             CCCChhhhcCCCceeEEEecCCCH
Q 037859          357 DKLDPALIRRGRMDKHIEMSYCCF  380 (504)
Q Consensus       357 e~Ld~ALlRpGR~d~~I~~~~p~~  380 (504)
                      ..|++|++.  || .+|+|+||+.
T Consensus       243 k~L~~AllD--RF-v~I~~dyp~~  263 (383)
T PHA02244        243 NKIDGATLD--RF-APIEFDYDEK  263 (383)
T ss_pred             cccCHHHHh--hc-EEeeCCCCcH
Confidence            578999999  99 6899999984

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.32  E-value=1.8e-11  Score=127.09  Aligned_cols=149  Identities=18%  Similarity=0.242  Sum_probs=102.0

Q ss_pred             cccccChhHHHHHHHhh--------cccccccCCCCCcHHHHHHHHHHhcC---------CcEEEEeccccCChHH----
Q 037859          209 DTLAMETKKKEEIKKDL--------KKGYLLYGPPGTGKSTMIAAMANFLN---------YDVYDLELTTVQDNSE----  267 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l--------~rg~LL~GPpGtGKTsla~aiA~~l~---------~~i~~l~~~~~~~~~~----  267 (504)
                      +.+.+.++..+.|...+        +..+++|||||||||++++++++.+.         ..++.+++....+...    
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~   94 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVE   94 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHH
Confidence            45677788787777776        35699999999999999999998763         4677788765432111    


Q ss_pred             ----------------------HHHHHH---hccCCeEEEEecccccccccccccccccccccccccCcccccccccCCC
Q 037859          268 ----------------------LRSLLI---DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGS  322 (504)
Q Consensus       268 ----------------------l~~l~~---~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  322 (504)
                                            +..++.   ....+.||+|||+|.+..   .                           
T Consensus        95 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~---~---------------------------  144 (365)
T TIGR02928        95 LANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVG---D---------------------------  144 (365)
T ss_pred             HHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhcc---C---------------------------
Confidence                                  111111   224568999999999741   0                           


Q ss_pred             cchhhHHHHHhhhhcCccccCCCceEEEEecCCCC---CCChhhhcCCCce-eEEEecCCCHHHHHHHHHHhcC
Q 037859          323 KKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVD---KLDPALIRRGRMD-KHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       323 ~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e---~Ld~ALlRpGR~d-~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                        ....+..|+...+-. ...+..+.+|+++|.++   .+++.+.+  ||. ..|+|+.++.+++..|++..+.
T Consensus       145 --~~~~L~~l~~~~~~~-~~~~~~v~lI~i~n~~~~~~~l~~~~~s--~~~~~~i~f~p~~~~e~~~il~~r~~  213 (365)
T TIGR02928       145 --DDDLLYQLSRARSNG-DLDNAKVGVIGISNDLKFRENLDPRVKS--SLCEEEIIFPPYDAEELRDILENRAE  213 (365)
T ss_pred             --CcHHHHhHhcccccc-CCCCCeEEEEEEECCcchHhhcCHHHhc--cCCcceeeeCCCCHHHHHHHHHHHHH
Confidence              112445555442111 11224578889998875   58889888  774 6799999999999999988764

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.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.31  E-value=2.5e-11  Score=124.05  Aligned_cols=150  Identities=19%  Similarity=0.289  Sum_probs=102.6

Q ss_pred             ccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhcCC-------cEE-------------------
Q 037859          206 ATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLNY-------DVY-------------------  255 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~~-------~i~-------------------  255 (504)
                      -+|+.++++++.|..++..+    ..|+||.||+|||||+++++++..+..       ++.                   
T Consensus        14 ~pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~~~p~~p~~~~~~~~~~~~~   93 (350)
T CHL00081         14 FPFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFNSHPSDPELMSDEVREAIQN   93 (350)
T ss_pred             CCHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCCCCCCChhhhchhhhhhhcc
Confidence            46999999999999998887    467999999999999999999887631       111                   


Q ss_pred             ---------EEecccc---CChH------HHHHHHHh-----------ccCCeEEEEecccccccccccccccccccccc
Q 037859          256 ---------DLELTTV---QDNS------ELRSLLID-----------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDK  306 (504)
Q Consensus       256 ---------~l~~~~~---~~~~------~l~~l~~~-----------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~  306 (504)
                               .+.+..+   .+.+      ++.+.|..           .....+||+|||+.+                 
T Consensus        94 ~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL-----------------  156 (350)
T CHL00081         94 GETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLL-----------------  156 (350)
T ss_pred             cccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhC-----------------
Confidence                     0000000   0111      12222221           234689999999985                 


Q ss_pred             cccCcccccccccCCCcchhhHHHHHhhhhc---------CccccCCCceEEEEecCCCC-CCChhhhcCCCceeEEEec
Q 037859          307 EEKNPIEKKEKEDGGSKKSKVTLSGLLNFID---------GLWSASGEERIIVFTTNYVD-KLDPALIRRGRMDKHIEMS  376 (504)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD---------g~~~~~~~~~ivI~tTN~~e-~Ld~ALlRpGR~d~~I~~~  376 (504)
                                        +..+.+.||+.|+         |.........++|+|.|..+ .++++|+.  ||.++|.++
T Consensus       157 ------------------~~~~Q~~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~Lld--Rf~l~i~l~  216 (350)
T CHL00081        157 ------------------DDHLVDILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGMHAEIR  216 (350)
T ss_pred             ------------------CHHHHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHH--HhCceeecC
Confidence                              2335666777764         22211223456777778665 69999999  999999999


Q ss_pred             CCC-HHHHHHHHHHhcC
Q 037859          377 YCC-FEAFKVLAKNYLD  392 (504)
Q Consensus       377 ~p~-~e~~~~i~~~~l~  392 (504)
                      +|+ .+.+.+|+++...
T Consensus       217 ~~~~~~~e~~il~~~~~  233 (350)
T CHL00081        217 TVKDPELRVKIVEQRTS  233 (350)
T ss_pred             CCCChHHHHHHHHhhhc
Confidence            997 5899999987643

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

Probab=99.30  E-value=3.1e-11  Score=114.32  Aligned_cols=160  Identities=19%  Similarity=0.281  Sum_probs=126.7

Q ss_pred             eeecCCCccccccccChhHHHHHHHhh--------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHH
Q 037859          199 HVFFEHPATFDTLAMETKKKEEIKKDL--------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSE  267 (504)
Q Consensus       199 ~~~~~~p~~f~~~~~~~~~k~~i~~~l--------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~  267 (504)
                      .+|-.+|..+..+++-+.+|+.+++.-        ...+||+|.-|||||||++|+-+++   +..++.++-..+.+-..
T Consensus        50 pv~~~~~i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl~~Lp~  129 (287)
T COG2607          50 PVPDPDPIDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDLATLPD  129 (287)
T ss_pred             CCCCCCCcCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHHHhhHHH
Confidence            355556677889999999999888765        5679999999999999999998877   56788888777777788


Q ss_pred             HHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCce
Q 037859          268 LRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEER  347 (504)
Q Consensus       268 l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~  347 (504)
                      |..++...+.+-|||+||+--  +                                ........|-..|||--...+.++
T Consensus       130 l~~~Lr~~~~kFIlFcDDLSF--e--------------------------------~gd~~yK~LKs~LeG~ve~rP~NV  175 (287)
T COG2607         130 LVELLRARPEKFILFCDDLSF--E--------------------------------EGDDAYKALKSALEGGVEGRPANV  175 (287)
T ss_pred             HHHHHhcCCceEEEEecCCCC--C--------------------------------CCchHHHHHHHHhcCCcccCCCeE
Confidence            888999999999999999732  0                                011245566777888777777889


Q ss_pred             EEEEecCCCCCCChhhh--------------------cCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          348 IIVFTTNYVDKLDPALI--------------------RRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       348 ivI~tTN~~e~Ld~ALl--------------------RpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      +|.+|+|+...|+.-..                    =..||...+.|..|+.++.-.|+.+|..
T Consensus       176 l~YATSNRRHLl~e~~~dn~~~~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~  240 (287)
T COG2607         176 LFYATSNRRHLLPEDMKDNEGSTGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAK  240 (287)
T ss_pred             EEEEecCCcccccHhhhhCCCcccccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHH
Confidence            99999998776653221                    1139999999999999999999988864

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.30  E-value=2.2e-11  Score=118.88  Aligned_cols=149  Identities=19%  Similarity=0.201  Sum_probs=89.8

Q ss_pred             CCCccccccccC--hhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCC-hHHHHHHH
Q 037859          203 EHPATFDTLAME--TKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQD-NSELRSLL  272 (504)
Q Consensus       203 ~~p~~f~~~~~~--~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~-~~~l~~l~  272 (504)
                      ..+.+|++++-.  ......+....    .+.++||||||||||+|+.++|+++   +..+.++++..... ..++.+.+
T Consensus        16 ~~~~~fd~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~~~~~~~~~~   95 (235)
T PRK08084         16 PDDETFASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAWFVPEVLEGM   95 (235)
T ss_pred             CCcCCccccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhhhhHHHHHHh
Confidence            344568887633  22222222221    3568999999999999999999876   44566666654321 12232222


Q ss_pred             HhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEe
Q 037859          273 IDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFT  352 (504)
Q Consensus       273 ~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~t  352 (504)
                         .+-.+|+|||||.+-   +                           .......+-.++|.+   .. .+...+++.+
T Consensus        96 ---~~~dlliiDdi~~~~---~---------------------------~~~~~~~lf~l~n~~---~e-~g~~~li~ts  138 (235)
T PRK08084         96 ---EQLSLVCIDNIECIA---G---------------------------DELWEMAIFDLYNRI---LE-SGRTRLLITG  138 (235)
T ss_pred             ---hhCCEEEEeChhhhc---C---------------------------CHHHHHHHHHHHHHH---HH-cCCCeEEEeC
Confidence               234689999999852   1                           111222343444432   11 1112344444


Q ss_pred             cCCCCC---CChhhhcCCCce--eEEEecCCCHHHHHHHHHHh
Q 037859          353 TNYVDK---LDPALIRRGRMD--KHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       353 TN~~e~---Ld~ALlRpGR~d--~~I~~~~p~~e~~~~i~~~~  390 (504)
                      ++.+..   +.|.|..  |+.  ..+.+..|+.+++.++++..
T Consensus       139 ~~~p~~l~~~~~~L~S--Rl~~g~~~~l~~~~~~~~~~~l~~~  179 (235)
T PRK08084        139 DRPPRQLNLGLPDLAS--RLDWGQIYKLQPLSDEEKLQALQLR  179 (235)
T ss_pred             CCChHHcCcccHHHHH--HHhCCceeeecCCCHHHHHHHHHHH
Confidence            555554   5799999  885  78999999999999998764

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.28  E-value=1.3e-10  Score=121.89  Aligned_cols=148  Identities=20%  Similarity=0.266  Sum_probs=100.5

Q ss_pred             cccccChhHHHHHHHhh--------cccccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccccCCh----------
Q 037859          209 DTLAMETKKKEEIKKDL--------KKGYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDN----------  265 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l--------~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~----------  265 (504)
                      +.+...++..++|...+        +..+++|||||||||++++.+++.+     +..++.+++....+.          
T Consensus        30 ~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~  109 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQ  109 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHH
Confidence            45666666666666665        3558999999999999999999887     567888887643221          


Q ss_pred             -------------HHHHH----HHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          266 -------------SELRS----LLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       266 -------------~~l~~----l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                                   .++..    .+.....+.||+|||+|.+..   .                            .....
T Consensus       110 l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~---~----------------------------~~~~~  158 (394)
T PRK00411        110 LFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFE---K----------------------------EGNDV  158 (394)
T ss_pred             hcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhc---c----------------------------CCchH
Confidence                         11111    112223468999999998631   0                            01235


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCC---CCCChhhhcCCCc-eeEEEecCCCHHHHHHHHHHhcC
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYV---DKLDPALIRRGRM-DKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~---e~Ld~ALlRpGR~-d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      +..|+..++...   +..+.+|+++|..   +.+++.+.+  |+ ...|.|+.++.++...|++..+.
T Consensus       159 l~~l~~~~~~~~---~~~v~vI~i~~~~~~~~~l~~~~~s--~~~~~~i~f~py~~~e~~~il~~r~~  221 (394)
T PRK00411        159 LYSLLRAHEEYP---GARIGVIGISSDLTFLYILDPRVKS--VFRPEEIYFPPYTADEIFDILKDRVE  221 (394)
T ss_pred             HHHHHHhhhccC---CCeEEEEEEECCcchhhhcCHHHHh--cCCcceeecCCCCHHHHHHHHHHHHH
Confidence            666776665432   2257788888865   357888877  55 35789999999999999987763

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

Probab=99.27  E-value=4.1e-11  Score=131.78  Aligned_cols=148  Identities=19%  Similarity=0.355  Sum_probs=115.4

Q ss_pred             ccccccChhHHHHHHHhh------------ccc-ccccCCCCCcHHHHHHHHHHhcC---CcEEEEeccccCChHHHHHH
Q 037859          208 FDTLAMETKKKEEIKKDL------------KKG-YLLYGPPGTGKSTMIAAMANFLN---YDVYDLELTTVQDNSELRSL  271 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l------------~rg-~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~~~l~~l  271 (504)
                      -+.|+++++..+.|.+.+            |-| +||.||+|+|||-||+++|..+.   -.++.+|++.......+.++
T Consensus       490 ~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsVSrL  569 (786)
T COG0542         490 KKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRL  569 (786)
T ss_pred             hcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHHHHHHH
Confidence            346778887777777777            444 78899999999999999999996   78999999988766667766


Q ss_pred             HHhc------------------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHh
Q 037859          272 LIDT------------------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLL  333 (504)
Q Consensus       272 ~~~~------------------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL  333 (504)
                      +..-                  ...|||++|||+..                                   +..+++-||
T Consensus       570 IGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKA-----------------------------------HpdV~nilL  614 (786)
T COG0542         570 IGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKA-----------------------------------HPDVFNLLL  614 (786)
T ss_pred             hCCCCCCceeccccchhHhhhcCCCeEEEechhhhc-----------------------------------CHHHHHHHH
Confidence            6442                  23589999999974                                   456899999


Q ss_pred             hhhcCccccCC-------CceEEEEecCCC----------------------------CCCChhhhcCCCceeEEEecCC
Q 037859          334 NFIDGLWSASG-------EERIIVFTTNYV----------------------------DKLDPALIRRGRMDKHIEMSYC  378 (504)
Q Consensus       334 ~~lDg~~~~~~-------~~~ivI~tTN~~----------------------------e~Ld~ALlRpGR~d~~I~~~~p  378 (504)
                      +.||.-.-..+       .+.|||||||--                            ..+.|+++.  |+|.+|.|...
T Consensus       615 QVlDdGrLTD~~Gr~VdFrNtiIImTSN~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLN--Rid~II~F~~L  692 (786)
T COG0542         615 QVLDDGRLTDGQGRTVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLN--RIDEIIPFNPL  692 (786)
T ss_pred             HHhcCCeeecCCCCEEecceeEEEEecccchHHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHh--hcccEEeccCC
Confidence            99984322222       235899999821                            124578888  99999999999


Q ss_pred             CHHHHHHHHHHhcC
Q 037859          379 CFEAFKVLAKNYLD  392 (504)
Q Consensus       379 ~~e~~~~i~~~~l~  392 (504)
                      +.+...+|+...+.
T Consensus       693 ~~~~l~~Iv~~~L~  706 (786)
T COG0542         693 SKEVLERIVDLQLN  706 (786)
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999998874

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.26  E-value=5.8e-11  Score=130.81  Aligned_cols=152  Identities=19%  Similarity=0.314  Sum_probs=102.2

Q ss_pred             CCCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccC-ChHH
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQ-DNSE  267 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~-~~~~  267 (504)
                      ..|.+|+.++++....+.++..+    +..++|+||||||||++|+++++..          +.+++.+++..+. +...
T Consensus       148 ~rp~~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~  227 (615)
T TIGR02903       148 LRPRAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPRE  227 (615)
T ss_pred             cCcCcHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHH
Confidence            35889999999998888887777    5569999999999999999998765          3467888876542 1111


Q ss_pred             HH----------------HHHHh------------ccCCeEEEEecccccccccccccccccccccccccCccccccccc
Q 037859          268 LR----------------SLLID------------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKED  319 (504)
Q Consensus       268 l~----------------~l~~~------------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (504)
                      +.                +.+..            .....+|||||++.+-                             
T Consensus       228 i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld-----------------------------  278 (615)
T TIGR02903       228 VTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELD-----------------------------  278 (615)
T ss_pred             HhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCC-----------------------------
Confidence            10                11111            1245799999998751                             


Q ss_pred             CCCcchhhHHHHHhhhhcC--------cc----------------ccCCCceEEEE-ecCCCCCCChhhhcCCCceeEEE
Q 037859          320 GGSKKSKVTLSGLLNFIDG--------LW----------------SASGEERIIVF-TTNYVDKLDPALIRRGRMDKHIE  374 (504)
Q Consensus       320 ~~~~~~~~~ls~lL~~lDg--------~~----------------~~~~~~~ivI~-tTN~~e~Ld~ALlRpGR~d~~I~  374 (504)
                            ......|+..|+.        .+                ......+++|+ ||+.++.++++|.+  ||. .+.
T Consensus       279 ------~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrS--R~~-~i~  349 (615)
T TIGR02903       279 ------PLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRS--RCA-EVF  349 (615)
T ss_pred             ------HHHHHHHHHHHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHh--cee-EEE
Confidence                  1112223332211        00                01122345555 56778889999998  996 678


Q ss_pred             ecCCCHHHHHHHHHHhcC
Q 037859          375 MSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       375 ~~~p~~e~~~~i~~~~l~  392 (504)
                      |+..+.+++..|++.++.
T Consensus       350 ~~pls~edi~~Il~~~a~  367 (615)
T TIGR02903       350 FEPLTPEDIALIVLNAAE  367 (615)
T ss_pred             eCCCCHHHHHHHHHHHHH
Confidence            999999999999998764

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.26  E-value=3.6e-11  Score=130.00  Aligned_cols=181  Identities=14%  Similarity=0.205  Sum_probs=107.9

Q ss_pred             ecCCCccccccccChhHH------HHHHHhh---cccccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccccCCh-
Q 037859          201 FFEHPATFDTLAMETKKK------EEIKKDL---KKGYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDN-  265 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k------~~i~~~l---~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~-  265 (504)
                      .+....+|++++..+.-.      ..+.+..   .+.++|||++|||||+|+.|||+++     ++.++++++..+... 
T Consensus       280 ~L~~~~TFDnFvvG~sN~~A~aaa~avae~~~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el  359 (617)
T PRK14086        280 RLNPKYTFDTFVIGASNRFAHAAAVAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEF  359 (617)
T ss_pred             CCCCCCCHhhhcCCCccHHHHHHHHHHHhCccccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHH
Confidence            344556799987655332      2222222   2348999999999999999999986     567788877554210 


Q ss_pred             ------HHHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          266 ------SELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       266 ------~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                            ..+..+........+|+||||+.+.   ++                           ..   +...|++.++.+
T Consensus       360 ~~al~~~~~~~f~~~y~~~DLLlIDDIq~l~---gk---------------------------e~---tqeeLF~l~N~l  406 (617)
T PRK14086        360 INSIRDGKGDSFRRRYREMDILLVDDIQFLE---DK---------------------------ES---TQEEFFHTFNTL  406 (617)
T ss_pred             HHHHHhccHHHHHHHhhcCCEEEEehhcccc---CC---------------------------HH---HHHHHHHHHHHH
Confidence                  0111111222456899999999862   11                           11   122333333333


Q ss_pred             cccCCCceEEEEecCCC----CCCChhhhcCCCc--eeEEEecCCCHHHHHHHHHHhcCcCCcchHHH-HhcCccCCCCC
Q 037859          340 WSASGEERIIVFTTNYV----DKLDPALIRRGRM--DKHIEMSYCCFEAFKVLAKNYLDIDSHELYAV-IESMPAETNMT  412 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~----e~Ld~ALlRpGR~--d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~-i~~l~~~~~~s  412 (504)
                      ...  + .-||+|+|.+    ..+++.|.+  ||  ...+.+..|+.+.|..|++.........+.++ ++-|+....=+
T Consensus       407 ~e~--g-k~IIITSd~~P~eL~~l~~rL~S--Rf~~GLvv~I~~PD~EtR~aIL~kka~~r~l~l~~eVi~yLa~r~~rn  481 (617)
T PRK14086        407 HNA--N-KQIVLSSDRPPKQLVTLEDRLRN--RFEWGLITDVQPPELETRIAILRKKAVQEQLNAPPEVLEFIASRISRN  481 (617)
T ss_pred             Hhc--C-CCEEEecCCChHhhhhccHHHHh--hhhcCceEEcCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhccCC
Confidence            221  2 3355677754    357899999  77  67779999999999999998765443333332 23333333334


Q ss_pred             HHHHHHh
Q 037859          413 PADVAEN  419 (504)
Q Consensus       413 ~a~i~~~  419 (504)
                      .++|.+.
T Consensus       482 vR~Lega  488 (617)
T PRK14086        482 IRELEGA  488 (617)
T ss_pred             HHHHHHH
Confidence            4454443

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.26  E-value=1.2e-10  Score=132.86  Aligned_cols=148  Identities=17%  Similarity=0.372  Sum_probs=106.2

Q ss_pred             ccccccChhHHHHHHHhh------------ccc-ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHH
Q 037859          208 FDTLAMETKKKEEIKKDL------------KKG-YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSL  271 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l------------~rg-~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l  271 (504)
                      ++.++++....+.|...+            |.| +||+||||||||++|++||..+   +.+++.++++.........++
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            567888888777777776            113 7899999999999999999987   456888888766433333333


Q ss_pred             H---------------Hh---ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHh
Q 037859          272 L---------------ID---TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLL  333 (504)
Q Consensus       272 ~---------------~~---~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL  333 (504)
                      +               .+   ....+||+|||||.+                                   +....+.|+
T Consensus       647 iG~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka-----------------------------------~~~v~~~Ll  691 (857)
T PRK10865        647 VGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKA-----------------------------------HPDVFNILL  691 (857)
T ss_pred             hCCCCcccccchhHHHHHHHHhCCCCeEEEeehhhC-----------------------------------CHHHHHHHH
Confidence            2               11   123489999999974                                   233667777


Q ss_pred             hhhcCcc--ccC-----CCceEEEEecCCC-------------------------CCCChhhhcCCCceeEEEecCCCHH
Q 037859          334 NFIDGLW--SAS-----GEERIIVFTTNYV-------------------------DKLDPALIRRGRMDKHIEMSYCCFE  381 (504)
Q Consensus       334 ~~lDg~~--~~~-----~~~~ivI~tTN~~-------------------------e~Ld~ALlRpGR~d~~I~~~~p~~e  381 (504)
                      +.+|.-.  ...     -.+.+||+|||..                         ..+.|+|+.  |+|.++.|.+++.+
T Consensus       692 ~ile~g~l~d~~gr~vd~rn~iiI~TSN~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PELln--Rld~iivF~PL~~e  769 (857)
T PRK10865        692 QVLDDGRLTDGQGRTVDFRNTVVIMTSNLGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFIN--RIDEVVVFHPLGEQ  769 (857)
T ss_pred             HHHhhCceecCCceEEeecccEEEEeCCcchHHHHHhccccchHHHHHHHHHHHcccccHHHHH--hCCeeEecCCCCHH
Confidence            7775311  100     1235799999972                         235689998  99999999999999


Q ss_pred             HHHHHHHHhcC
Q 037859          382 AFKVLAKNYLD  392 (504)
Q Consensus       382 ~~~~i~~~~l~  392 (504)
                      ....|++.++.
T Consensus       770 dl~~Iv~~~L~  780 (857)
T PRK10865        770 HIASIAQIQLQ  780 (857)
T ss_pred             HHHHHHHHHHH
Confidence            99999998874

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

Probab=99.25  E-value=4.7e-11  Score=124.62  Aligned_cols=44  Identities=36%  Similarity=0.582  Sum_probs=38.5

Q ss_pred             ccccccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcC
Q 037859          208 FDTLAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      ++++.+++...+.++..+  ++.++|+||||||||++|+++|..++
T Consensus       174 l~d~~i~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l~  219 (459)
T PRK11331        174 LNDLFIPETTIETILKRLTIKKNIILQGPPGVGKTFVARRLAYLLT  219 (459)
T ss_pred             hhcccCCHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhc
Confidence            667778888888888877  77899999999999999999999885

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.25  E-value=1.1e-10  Score=119.29  Aligned_cols=149  Identities=21%  Similarity=0.301  Sum_probs=101.0

Q ss_pred             cccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc-------CCcEE-------------E------
Q 037859          207 TFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL-------NYDVY-------------D------  256 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l-------~~~i~-------------~------  256 (504)
                      +|..++++++.|..++-.+    ..++||.||||||||++++++++.+       ++++-             .      
T Consensus         2 pf~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~   81 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPEMMCEEVRIRVDSQ   81 (337)
T ss_pred             CccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCccccChHHhhhhhcc
Confidence            5888999999998876655    3559999999999999999999877       22111             0      


Q ss_pred             ------------Eecc------ccCChHHHHHHHH-----------hccCCeEEEEeccccccccccccccccccccccc
Q 037859          257 ------------LELT------TVQDNSELRSLLI-----------DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKE  307 (504)
Q Consensus       257 ------------l~~~------~~~~~~~l~~l~~-----------~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~  307 (504)
                                  .++.      .+.+.-.+...+.           ....+.+||||||+.+                  
T Consensus        82 ~~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L------------------  143 (337)
T TIGR02030        82 EPLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNLL------------------  143 (337)
T ss_pred             cccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHhC------------------
Confidence                        1111      0111222333221           1234689999999985                  


Q ss_pred             ccCcccccccccCCCcchhhHHHHHhhhhc---------CccccCCCceEEEEecCCCC-CCChhhhcCCCceeEEEecC
Q 037859          308 EKNPIEKKEKEDGGSKKSKVTLSGLLNFID---------GLWSASGEERIIVFTTNYVD-KLDPALIRRGRMDKHIEMSY  377 (504)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD---------g~~~~~~~~~ivI~tTN~~e-~Ld~ALlRpGR~d~~I~~~~  377 (504)
                                       +..+.+.||+.|+         |.........++|+|+|..+ .++++|+.  ||.+++.+++
T Consensus       144 -----------------~~~~Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~eg~l~~~Lld--Rf~l~i~l~~  204 (337)
T TIGR02030       144 -----------------EDHLVDVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGLHAEIRT  204 (337)
T ss_pred             -----------------CHHHHHHHHHHHHhCCeEEEECCEEEEcCCCEEEEeccccccCCCCHHHHh--hcceEEECCC
Confidence                             2235666777664         22222223457777888665 69999999  9999999999


Q ss_pred             CCH-HHHHHHHHHhcC
Q 037859          378 CCF-EAFKVLAKNYLD  392 (504)
Q Consensus       378 p~~-e~~~~i~~~~l~  392 (504)
                      |.. +++.+|+++...
T Consensus       205 p~~~eer~eIL~~~~~  220 (337)
T TIGR02030       205 VRDVELRVEIVERRTE  220 (337)
T ss_pred             CCCHHHHHHHHHhhhh
Confidence            976 888888887543

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.22  E-value=1.6e-10  Score=132.19  Aligned_cols=148  Identities=17%  Similarity=0.364  Sum_probs=106.4

Q ss_pred             ccccccChhHHHHHHHhhc------------cc-ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHH
Q 037859          208 FDTLAMETKKKEEIKKDLK------------KG-YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSL  271 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l~------------rg-~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l  271 (504)
                      -+.+++++...+.|...+.            .+ +||+||||||||.+|++||..+   +.+++.++++.......+.++
T Consensus       564 ~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~~~~l  643 (852)
T TIGR03346       564 HERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSVARL  643 (852)
T ss_pred             hcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccchHHHh
Confidence            3567888888888887771            23 8899999999999999999987   467888888765433222222


Q ss_pred             H---------------H---hccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHh
Q 037859          272 L---------------I---DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLL  333 (504)
Q Consensus       272 ~---------------~---~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL  333 (504)
                      +               .   .....+||||||||.+                                   +....+.||
T Consensus       644 ~g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka-----------------------------------~~~v~~~Ll  688 (852)
T TIGR03346       644 IGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKA-----------------------------------HPDVFNVLL  688 (852)
T ss_pred             cCCCCCccCcccccHHHHHHHcCCCcEEEEeccccC-----------------------------------CHHHHHHHH
Confidence            1               1   1234589999999975                                   234667788


Q ss_pred             hhhcCcc--ccC-----CCceEEEEecCCCC-------------------------CCChhhhcCCCceeEEEecCCCHH
Q 037859          334 NFIDGLW--SAS-----GEERIIVFTTNYVD-------------------------KLDPALIRRGRMDKHIEMSYCCFE  381 (504)
Q Consensus       334 ~~lDg~~--~~~-----~~~~ivI~tTN~~e-------------------------~Ld~ALlRpGR~d~~I~~~~p~~e  381 (504)
                      +.+|.-.  +..     -.+.|||+|||...                         .+.|.|+.  |+|..|.|.+++.+
T Consensus       689 ~~l~~g~l~d~~g~~vd~rn~iiI~TSn~g~~~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~~--Rid~IivF~PL~~e  766 (852)
T TIGR03346       689 QVLDDGRLTDGQGRTVDFRNTVIIMTSNLGSQFIQELAGGDDYEEMREAVMEVLRAHFRPEFLN--RIDEIVVFHPLGRE  766 (852)
T ss_pred             HHHhcCceecCCCeEEecCCcEEEEeCCcchHhHhhhcccccHHHHHHHHHHHHHhhcCHHHhc--CcCeEEecCCcCHH
Confidence            8775321  111     13468999999721                         24577887  99999999999999


Q ss_pred             HHHHHHHHhcC
Q 037859          382 AFKVLAKNYLD  392 (504)
Q Consensus       382 ~~~~i~~~~l~  392 (504)
                      ....|+...+.
T Consensus       767 ~l~~I~~l~L~  777 (852)
T TIGR03346       767 QIARIVEIQLG  777 (852)
T ss_pred             HHHHHHHHHHH
Confidence            99999988873

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.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.21  E-value=3.8e-11  Score=127.47  Aligned_cols=181  Identities=15%  Similarity=0.238  Sum_probs=103.3

Q ss_pred             ecCCCccccccccChhHHH---HHHHhh-----cccccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccccCCh--
Q 037859          201 FFEHPATFDTLAMETKKKE---EIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDN--  265 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~---~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~--  265 (504)
                      ++....+|++++..+.-..   ......     ..+++||||||||||+|++|+|+++     +..++++++..+...  
T Consensus        97 ~l~~~~tFdnFv~g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~~  176 (440)
T PRK14088         97 PLNPDYTFENFVVGPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLV  176 (440)
T ss_pred             CCCCCCcccccccCCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHH
Confidence            4445567888774443221   111111     2458999999999999999999986     456777776543110  


Q ss_pred             -----HHHHHHHHhc-cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          266 -----SELRSLLIDT-SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       266 -----~~l~~l~~~~-~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                           ..+....... ..+.+|+|||+|.+.+   ..                              .+...|+..++.+
T Consensus       177 ~~~~~~~~~~f~~~~~~~~dvLlIDDi~~l~~---~~------------------------------~~q~elf~~~n~l  223 (440)
T PRK14088        177 DSMKEGKLNEFREKYRKKVDVLLIDDVQFLIG---KT------------------------------GVQTELFHTFNEL  223 (440)
T ss_pred             HHHhcccHHHHHHHHHhcCCEEEEechhhhcC---cH------------------------------HHHHHHHHHHHHH
Confidence                 0111111111 2578999999998631   10                              0112333334333


Q ss_pred             cccCCCceEEEEecC-CCCC---CChhhhcCCCc--eeEEEecCCCHHHHHHHHHHhcCcCCcchHHH-HhcCccCCCCC
Q 037859          340 WSASGEERIIVFTTN-YVDK---LDPALIRRGRM--DKHIEMSYCCFEAFKVLAKNYLDIDSHELYAV-IESMPAETNMT  412 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN-~~e~---Ld~ALlRpGR~--d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~-i~~l~~~~~~s  412 (504)
                      ...  + ..+|+||| .|..   +++.|..  ||  ...+.+..|+.+.|..|++.........+.++ +..++....-+
T Consensus       224 ~~~--~-k~iIitsd~~p~~l~~l~~rL~S--R~~~gl~v~i~~pd~e~r~~IL~~~~~~~~~~l~~ev~~~Ia~~~~~~  298 (440)
T PRK14088        224 HDS--G-KQIVICSDREPQKLSEFQDRLVS--RFQMGLVAKLEPPDEETRKKIARKMLEIEHGELPEEVLNFVAENVDDN  298 (440)
T ss_pred             HHc--C-CeEEEECCCCHHHHHHHHHHHhh--HHhcCceEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHhccccC
Confidence            221  2 34555554 4443   5678888  66  46889999999999999998875433323222 33334333444


Q ss_pred             HHHHHHh
Q 037859          413 PADVAEN  419 (504)
Q Consensus       413 ~a~i~~~  419 (504)
                      .++|.+.
T Consensus       299 ~R~L~g~  305 (440)
T PRK14088        299 LRRLRGA  305 (440)
T ss_pred             HHHHHHH
Confidence            4444444

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.21  E-value=3.5e-11  Score=127.55  Aligned_cols=127  Identities=20%  Similarity=0.322  Sum_probs=84.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHH--------HHHh-ccCCeEEEEecccccccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRS--------LLID-TSSKSILVIEDIDCSLDLTG  294 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~--------l~~~-~~~~~Il~iDeiD~~~~~~~  294 (504)
                      ++++||||||+|||+|++|+|+++   +..+++++...+..  .+..        .|.. .....+|+||||+.+.   +
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~--~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l~---~  216 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTE--HLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFS---G  216 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHH--HHHHHHhcchHHHHHHHcccCCEEEEcchhhhc---C
Confidence            468999999999999999999976   57788877654311  1111        1221 2456799999999852   1


Q ss_pred             cccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCC----CCCChhhhcCCCce
Q 037859          295 QREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYV----DKLDPALIRRGRMD  370 (504)
Q Consensus       295 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~----e~Ld~ALlRpGR~d  370 (504)
                      +                           ......+-.++|.+   ..   .+..+|+|+|.+    ..++++|.+  ||.
T Consensus       217 k---------------------------~~~qeelf~l~N~l---~~---~~k~IIlts~~~p~~l~~l~~rL~S--R~~  261 (445)
T PRK12422        217 K---------------------------GATQEEFFHTFNSL---HT---EGKLIVISSTCAPQDLKAMEERLIS--RFE  261 (445)
T ss_pred             C---------------------------hhhHHHHHHHHHHH---HH---CCCcEEEecCCCHHHHhhhHHHHHh--hhc
Confidence            1                           11122333344432   11   123566666653    357899999  885


Q ss_pred             --eEEEecCCCHHHHHHHHHHhcCc
Q 037859          371 --KHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       371 --~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                        ..+.+..|+.+.+..|++.....
T Consensus       262 ~Gl~~~l~~pd~e~r~~iL~~k~~~  286 (445)
T PRK12422        262 WGIAIPLHPLTKEGLRSFLERKAEA  286 (445)
T ss_pred             CCeEEecCCCCHHHHHHHHHHHHHH
Confidence              88999999999999999887644

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.20  E-value=1.7e-10  Score=131.52  Aligned_cols=146  Identities=17%  Similarity=0.328  Sum_probs=104.4

Q ss_pred             cccccChhHHHHHHHhh------------ccc-ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHH-----
Q 037859          209 DTLAMETKKKEEIKKDL------------KKG-YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSE-----  267 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l------------~rg-~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~-----  267 (504)
                      +.|++++...+.|...+            |.| +||+||||||||++|+++|..+   +.+++.++++.......     
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~~~l~  588 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTVSKLI  588 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccHHHhc
Confidence            56778888888887776            233 7899999999999999999987   35788888776532222     


Q ss_pred             --------------HHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHh
Q 037859          268 --------------LRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLL  333 (504)
Q Consensus       268 --------------l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL  333 (504)
                                    |...+. ....+||+|||||.+                                   +....+.||
T Consensus       589 g~~~gyvg~~~~~~l~~~~~-~~p~~VvllDeieka-----------------------------------~~~v~~~Ll  632 (821)
T CHL00095        589 GSPPGYVGYNEGGQLTEAVR-KKPYTVVLFDEIEKA-----------------------------------HPDIFNLLL  632 (821)
T ss_pred             CCCCcccCcCccchHHHHHH-hCCCeEEEECChhhC-----------------------------------CHHHHHHHH
Confidence                          222221 134589999999985                                   234677788


Q ss_pred             hhhcCcc--cc-----CCCceEEEEecCCCCC-------------------------------------CChhhhcCCCc
Q 037859          334 NFIDGLW--SA-----SGEERIIVFTTNYVDK-------------------------------------LDPALIRRGRM  369 (504)
Q Consensus       334 ~~lDg~~--~~-----~~~~~ivI~tTN~~e~-------------------------------------Ld~ALlRpGR~  369 (504)
                      ..+|.-.  ..     .-.+.+||+|||....                                     +.|.|+.  |+
T Consensus       633 q~le~g~~~d~~g~~v~~~~~i~I~Tsn~g~~~i~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~pefln--Ri  710 (821)
T CHL00095        633 QILDDGRLTDSKGRTIDFKNTLIIMTSNLGSKVIETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRPEFLN--RL  710 (821)
T ss_pred             HHhccCceecCCCcEEecCceEEEEeCCcchHHHHhhccccCCcccccccccccHHHHHHHHHHHHHHhcCHHHhc--cC
Confidence            8887421  11     1135789999984311                                     2366777  99


Q ss_pred             eeEEEecCCCHHHHHHHHHHhcC
Q 037859          370 DKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       370 d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      |..|.|...+.++...|+...+.
T Consensus       711 d~ii~F~pL~~~~l~~Iv~~~l~  733 (821)
T CHL00095        711 DEIIVFRQLTKNDVWEIAEIMLK  733 (821)
T ss_pred             CeEEEeCCCCHHHHHHHHHHHHH
Confidence            99999999999999999988874

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.20  E-value=1.3e-10  Score=119.10  Aligned_cols=140  Identities=19%  Similarity=0.270  Sum_probs=103.3

Q ss_pred             cccccc-ChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cEEEE
Q 037859          208 FDTLAM-ETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DVYDL  257 (504)
Q Consensus       208 f~~~~~-~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i~~l  257 (504)
                      |+++.+ ++..++.+...+     +..||||||+|+||+++|+++|+.+.+                        ++..+
T Consensus         4 ~~~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i   83 (329)
T PRK08058          4 WEQLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLV   83 (329)
T ss_pred             HHHHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEe
Confidence            456666 777777777776     667999999999999999999998742                        23333


Q ss_pred             ecccc-CChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHH
Q 037859          258 ELTTV-QDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLS  330 (504)
Q Consensus       258 ~~~~~-~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls  330 (504)
                      ....- ...++++.+....      ..+-|++|||+|.+                                   +....+
T Consensus        84 ~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~-----------------------------------~~~a~N  128 (329)
T PRK08058         84 APDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKM-----------------------------------TASAAN  128 (329)
T ss_pred             ccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhh-----------------------------------CHHHHH
Confidence            32211 1234566655433      24579999999985                                   233667


Q ss_pred             HHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHH
Q 037859          331 GLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKN  389 (504)
Q Consensus       331 ~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~  389 (504)
                      .||..|+..    ++..++|++|+.++.|.|+++.  |+ .+++|..|+.++....++.
T Consensus       129 aLLK~LEEP----p~~~~~Il~t~~~~~ll~TIrS--Rc-~~i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        129 SLLKFLEEP----SGGTTAILLTENKHQILPTILS--RC-QVVEFRPLPPESLIQRLQE  180 (329)
T ss_pred             HHHHHhcCC----CCCceEEEEeCChHhCcHHHHh--hc-eeeeCCCCCHHHHHHHHHH
Confidence            899999854    3557888899999999999999  88 6899999999988777764

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.19  E-value=4e-10  Score=123.99  Aligned_cols=181  Identities=18%  Similarity=0.266  Sum_probs=110.7

Q ss_pred             ccccChhHHHHHHHhh--------cccc-cccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCCh-----
Q 037859          210 TLAMETKKKEEIKKDL--------KKGY-LLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQDN-----  265 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l--------~rg~-LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~~-----  265 (504)
                      .+...++..++|...|        +.++ ++|||||||||++++.+..++          .+.++.++|..+.+.     
T Consensus       756 ~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIYq  835 (1164)
T PTZ00112        756 YLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAYQ  835 (1164)
T ss_pred             cCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHHH
Confidence            3444455555555555        3334 599999999999999998776          256788888654322     


Q ss_pred             ------------------HHHHHHHHhc----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCc
Q 037859          266 ------------------SELRSLLIDT----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSK  323 (504)
Q Consensus       266 ------------------~~l~~l~~~~----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  323 (504)
                                        ..+..+|...    ....||+|||||.+..   .                            
T Consensus       836 vI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~k---K----------------------------  884 (1164)
T PTZ00112        836 VLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLIT---K----------------------------  884 (1164)
T ss_pred             HHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCc---c----------------------------
Confidence                              1233444332    1246999999999741   0                            


Q ss_pred             chhhHHHHHhhhhcCccccCCCceEEEEecCC---CCCCChhhhcCCCcee-EEEecCCCHHHHHHHHHHhcCcCCcchH
Q 037859          324 KSKVTLSGLLNFIDGLWSASGEERIIVFTTNY---VDKLDPALIRRGRMDK-HIEMSYCCFEAFKVLAKNYLDIDSHELY  399 (504)
Q Consensus       324 ~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~---~e~Ld~ALlRpGR~d~-~I~~~~p~~e~~~~i~~~~l~~~~~~~~  399 (504)
                       ....|-.|++...    ..+..++||+++|.   ++.|+|.+..  ||.. .|.|++++.+++..|++..+....    
T Consensus       885 -~QDVLYnLFR~~~----~s~SKLiLIGISNdlDLperLdPRLRS--RLg~eeIvF~PYTaEQL~dILk~RAe~A~----  953 (1164)
T PTZ00112        885 -TQKVLFTLFDWPT----KINSKLVLIAISNTMDLPERLIPRCRS--RLAFGRLVFSPYKGDEIEKIIKERLENCK----  953 (1164)
T ss_pred             -HHHHHHHHHHHhh----ccCCeEEEEEecCchhcchhhhhhhhh--ccccccccCCCCCHHHHHHHHHHHHHhCC----
Confidence             1234444444322    12345788899985   5678888888  6643 488999999999999987764321    


Q ss_pred             HHHhcCccCCCCCHHHHHHhhCC--CCCCCCHHHHHHHHHHHHHH
Q 037859          400 AVIESMPAETNMTPADVAENLMP--KCDEDDTETCLKNLIEALKA  442 (504)
Q Consensus       400 ~~i~~l~~~~~~s~a~i~~~l~~--~~~~~~~~~~l~~li~al~~  442 (504)
                               .-+++.-| +++..  +...+|+..|++-+..|++.
T Consensus       954 ---------gVLdDdAI-ELIArkVAq~SGDARKALDILRrAgEi  988 (1164)
T PTZ00112        954 ---------EIIDHTAI-QLCARKVANVSGDIRKALQICRKAFEN  988 (1164)
T ss_pred             ---------CCCCHHHH-HHHHHhhhhcCCHHHHHHHHHHHHHhh
Confidence                     11233222 23222  12346677777766666553

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.19  E-value=2.1e-10  Score=117.09  Aligned_cols=124  Identities=19%  Similarity=0.303  Sum_probs=94.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC------------------------cEEEEeccc---cCChHHHHHHHHhc---
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DVYDLELTT---VQDNSELRSLLIDT---  275 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i~~l~~~~---~~~~~~l~~l~~~~---  275 (504)
                      +.+|||+||+|+|||++|.++|+.+.+                        +++.+....   .-.-+++|.+....   
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~~~~  101 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFVVQT  101 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHHhhc
Confidence            678999999999999999999998854                        455554321   12345666665443   


Q ss_pred             ---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEe
Q 037859          276 ---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFT  352 (504)
Q Consensus       276 ---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~t  352 (504)
                         ...-|++||++|.+                                   +....+.||..|+.-    +++.++|++
T Consensus       102 ~~~~~~kv~iI~~a~~m-----------------------------------~~~aaNaLLK~LEEP----p~~~~fiL~  142 (328)
T PRK05707        102 AQLGGRKVVLIEPAEAM-----------------------------------NRNAANALLKSLEEP----SGDTVLLLI  142 (328)
T ss_pred             cccCCCeEEEECChhhC-----------------------------------CHHHHHHHHHHHhCC----CCCeEEEEE
Confidence               24568899999986                                   234678899998863    356889999


Q ss_pred             cCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          353 TNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       353 TN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      |+.++.|.|.++.  |+ ..+.|+.|+.++....+....
T Consensus       143 t~~~~~ll~TI~S--Rc-~~~~~~~~~~~~~~~~L~~~~  178 (328)
T PRK05707        143 SHQPSRLLPTIKS--RC-QQQACPLPSNEESLQWLQQAL  178 (328)
T ss_pred             ECChhhCcHHHHh--hc-eeeeCCCcCHHHHHHHHHHhc
Confidence            9999999999999  98 579999999988877776543

>PRK05642 DNA replication initiation factor; Validated

Probab=99.18  E-value=1.5e-10  Score=112.82  Aligned_cols=125  Identities=18%  Similarity=0.201  Sum_probs=79.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHHHHhccCCeEEEEeccccccccccccccccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKD  303 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~  303 (504)
                      +.++||||+|||||+|++|+++++   +..+++++...+...  ...++....+--+|+|||++.+.   +.        
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~--~~~~~~~~~~~d~LiiDDi~~~~---~~--------  112 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDR--GPELLDNLEQYELVCLDDLDVIA---GK--------  112 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhh--hHHHHHhhhhCCEEEEechhhhc---CC--------
Confidence            568899999999999999999765   567788877655321  11222222334589999999742   11        


Q ss_pred             ccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCC---CCChhhhcCCCc--eeEEEecCC
Q 037859          304 EDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVD---KLDPALIRRGRM--DKHIEMSYC  378 (504)
Q Consensus       304 ~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e---~Ld~ALlRpGR~--d~~I~~~~p  378 (504)
                                         ....   ..|.+.++....  .+..++|.++..+.   .+.|.|..  |+  ...+.+..|
T Consensus       113 -------------------~~~~---~~Lf~l~n~~~~--~g~~ilits~~~p~~l~~~~~~L~S--Rl~~gl~~~l~~~  166 (234)
T PRK05642        113 -------------------ADWE---EALFHLFNRLRD--SGRRLLLAASKSPRELPIKLPDLKS--RLTLALVFQMRGL  166 (234)
T ss_pred             -------------------hHHH---HHHHHHHHHHHh--cCCEEEEeCCCCHHHcCccCccHHH--HHhcCeeeecCCC
Confidence                               1112   233444433321  22345444444443   24699999  87  477888999


Q ss_pred             CHHHHHHHHHHh
Q 037859          379 CFEAFKVLAKNY  390 (504)
Q Consensus       379 ~~e~~~~i~~~~  390 (504)
                      +.+++..+++..
T Consensus       167 ~~e~~~~il~~k  178 (234)
T PRK05642        167 SDEDKLRALQLR  178 (234)
T ss_pred             CHHHHHHHHHHH
Confidence            999999998854

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.18  E-value=9e-11  Score=133.52  Aligned_cols=145  Identities=20%  Similarity=0.351  Sum_probs=103.7

Q ss_pred             cccccChhHHHHHHHhh------------ccc-ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHH-----
Q 037859          209 DTLAMETKKKEEIKKDL------------KKG-YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSE-----  267 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l------------~rg-~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~-----  267 (504)
                      +.|+++++..+.|.+.+            |.| +||+||||||||.+|+++|..+   ...++.++++.......     
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~~~~~l~  645 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAHTVSRLK  645 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhhhhcccc
Confidence            46778888877777776            445 7999999999999999999988   45678888776532222     


Q ss_pred             --------------HHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHh
Q 037859          268 --------------LRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLL  333 (504)
Q Consensus       268 --------------l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL  333 (504)
                                    |...+. ..+.+||+|||||.+                                   +....+.|+
T Consensus       646 g~~~gyvg~~~~g~L~~~v~-~~p~svvllDEieka-----------------------------------~~~v~~~Ll  689 (852)
T TIGR03345       646 GSPPGYVGYGEGGVLTEAVR-RKPYSVVLLDEVEKA-----------------------------------HPDVLELFY  689 (852)
T ss_pred             CCCCCcccccccchHHHHHH-hCCCcEEEEechhhc-----------------------------------CHHHHHHHH
Confidence                          222222 246799999999974                                   223566677


Q ss_pred             hhhcCcc--ccCC-----CceEEEEecCCC-----------------------------CCCChhhhcCCCceeEEEecC
Q 037859          334 NFIDGLW--SASG-----EERIIVFTTNYV-----------------------------DKLDPALIRRGRMDKHIEMSY  377 (504)
Q Consensus       334 ~~lDg~~--~~~~-----~~~ivI~tTN~~-----------------------------e~Ld~ALlRpGR~d~~I~~~~  377 (504)
                      ..+|.-.  ...|     .+.+||+|||..                             ..+.|+|+.  |++ .|.|..
T Consensus       690 q~ld~g~l~d~~Gr~vd~~n~iiI~TSNlg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEfln--Ri~-iI~F~p  766 (852)
T TIGR03345       690 QVFDKGVMEDGEGREIDFKNTVILLTSNAGSDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLG--RMT-VIPYLP  766 (852)
T ss_pred             HHhhcceeecCCCcEEeccccEEEEeCCCchHHHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhc--cee-EEEeCC
Confidence            7776322  1111     347899999841                             125688888  998 789999


Q ss_pred             CCHHHHHHHHHHhcC
Q 037859          378 CCFEAFKVLAKNYLD  392 (504)
Q Consensus       378 p~~e~~~~i~~~~l~  392 (504)
                      .+.++...|+...+.
T Consensus       767 Ls~e~l~~Iv~~~L~  781 (852)
T TIGR03345       767 LDDDVLAAIVRLKLD  781 (852)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999988874

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.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.18  E-value=1.4e-10  Score=119.71  Aligned_cols=35  Identities=31%  Similarity=0.527  Sum_probs=33.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELT  260 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  260 (504)
                      |+++||+||||||||++|+++|..++.+++.++.+
T Consensus        47 p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat   81 (441)
T TIGR00390        47 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEAT   81 (441)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecc
Confidence            58999999999999999999999999999999865

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.

>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=99.18  E-value=3.9e-11  Score=111.19  Aligned_cols=106  Identities=21%  Similarity=0.399  Sum_probs=74.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC----cEEEEeccccCC----hHHHHHHHHhcc------CCeEEEEeccccccccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY----DVYDLELTTVQD----NSELRSLLIDTS------SKSILVIEDIDCSLDLT  293 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~----~i~~l~~~~~~~----~~~l~~l~~~~~------~~~Il~iDeiD~~~~~~  293 (504)
                      .+||.||+|||||.+|+++|..+..    +++.+|++....    ...+.+++...+      ...||||||||.+... 
T Consensus         5 ~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~~~~~gVVllDEidKa~~~-   83 (171)
T PF07724_consen    5 NFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVGAEEGGVVLLDEIDKAHPS-   83 (171)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHHHHHHTEEEEETGGGCSHT-
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccchHHhhhhhhhhcccceeeccchhhhhhHHHhhcccc-
Confidence            4789999999999999999999996    999999999877    444555554442      3469999999996421 


Q ss_pred             ccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc--C-----CCceEEEEecCCCC
Q 037859          294 GQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA--S-----GEERIIVFTTNYVD  357 (504)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~--~-----~~~~ivI~tTN~~e  357 (504)
                                             ...+.+.....+.+.||..||+-.-.  .     -.+.++|||+|--.
T Consensus        84 -----------------------~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~~  131 (171)
T PF07724_consen   84 -----------------------NSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFGA  131 (171)
T ss_dssp             -----------------------TTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSST
T ss_pred             -----------------------ccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEeccccc
Confidence                                   01112223345678888888754211  1     13478999999654

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 ....

>PRK07952 DNA replication protein DnaC; Validated

Probab=99.17  E-value=4.9e-11  Score=116.50  Aligned_cols=89  Identities=24%  Similarity=0.397  Sum_probs=63.0

Q ss_pred             ecCCCccccccccChhHHHHHHHhh----------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCC---
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDL----------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQD---  264 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l----------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~---  264 (504)
                      +..++.+|+++....+..+.++..+          ..|++|+||||||||+|+.|||+++   +..++.++...+..   
T Consensus        64 ~~~~~~tFdnf~~~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l~  143 (244)
T PRK07952         64 PLHQNCSFENYRVECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAMK  143 (244)
T ss_pred             ccccCCccccccCCCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHHH
Confidence            4556778999886654333333333          2589999999999999999999998   67787777655421   


Q ss_pred             ------hHHHHHHHHhccCCeEEEEeccccc
Q 037859          265 ------NSELRSLLIDTSSKSILVIEDIDCS  289 (504)
Q Consensus       265 ------~~~l~~l~~~~~~~~Il~iDeiD~~  289 (504)
                            +....+++.......+|+|||+++.
T Consensus       144 ~~~~~~~~~~~~~l~~l~~~dlLvIDDig~~  174 (244)
T PRK07952        144 DTFSNSETSEEQLLNDLSNVDLLVIDEIGVQ  174 (244)
T ss_pred             HHHhhccccHHHHHHHhccCCEEEEeCCCCC
Confidence                  1123345555567889999999883

>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=99.17  E-value=3.1e-11  Score=104.86  Aligned_cols=104  Identities=26%  Similarity=0.334  Sum_probs=62.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHH--HHhc-------c---CCeEEEEecccccccccccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSL--LIDT-------S---SKSILVIEDIDCSLDLTGQR  296 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l--~~~~-------~---~~~Il~iDeiD~~~~~~~~~  296 (504)
                      +||.|+||+|||++|+++|..++..+.++.++.-...+++...  +...       .   -..|+++|||+..       
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPif~~ill~DEiNra-------   74 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPIFTNILLADEINRA-------   74 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT-SSEEEEETGGGS-------
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCCCeeEeecChhhhceeeecccccC-------
Confidence            7999999999999999999999999999988643333333211  1100       1   2369999999874       


Q ss_pred             cccccccccccccCcccccccccCCCcchhhHHHHHhhhhc-------CccccCCCceEEEEecCCCC-----CCChhhh
Q 037859          297 EKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID-------GLWSASGEERIIVFTTNYVD-----KLDPALI  364 (504)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD-------g~~~~~~~~~ivI~tTN~~e-----~Ld~ALl  364 (504)
                                                  ...+.|.||..|.       |..-......+||+|-|..+     .|++|++
T Consensus        75 ----------------------------ppktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~  126 (131)
T PF07726_consen   75 ----------------------------PPKTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQL  126 (131)
T ss_dssp             -----------------------------HHHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHH
T ss_pred             ----------------------------CHHHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHh
Confidence                                        3457888998774       32223345578888999887     6899999


Q ss_pred             cCCCc
Q 037859          365 RRGRM  369 (504)
Q Consensus       365 RpGR~  369 (504)
                      .  ||
T Consensus       127 D--RF  129 (131)
T PF07726_consen  127 D--RF  129 (131)
T ss_dssp             T--TS
T ss_pred             c--cc
Confidence            9  88

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.

>PRK06620 hypothetical protein; Validated

Probab=99.16  E-value=2.2e-10  Score=110.08  Aligned_cols=113  Identities=21%  Similarity=0.283  Sum_probs=75.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCeEEEEecccccccccccccccccccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDK  306 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~  306 (504)
                      +.++||||||||||+|++++++..+..  .+.....  ..   ..+   ....+++|||||.+                 
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~~--~~~~~~~--~~---~~~---~~~d~lliDdi~~~-----------------   97 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNAY--IIKDIFF--NE---EIL---EKYNAFIIEDIENW-----------------   97 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCCE--Ecchhhh--ch---hHH---hcCCEEEEeccccc-----------------
Confidence            448999999999999999999988753  2221111  11   111   24478999999953                 


Q ss_pred             cccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCC--CChhhhcCCCce--eEEEecCCCHHH
Q 037859          307 EEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDK--LDPALIRRGRMD--KHIEMSYCCFEA  382 (504)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~--Ld~ALlRpGR~d--~~I~~~~p~~e~  382 (504)
                                        ....+-.++|.+..     .+..++|.++..|..  + |+|+.  |+.  ..+.+..|+.+.
T Consensus        98 ------------------~~~~lf~l~N~~~e-----~g~~ilits~~~p~~l~l-~~L~S--Rl~~gl~~~l~~pd~~~  151 (214)
T PRK06620         98 ------------------QEPALLHIFNIINE-----KQKYLLLTSSDKSRNFTL-PDLSS--RIKSVLSILLNSPDDEL  151 (214)
T ss_pred             ------------------hHHHHHHHHHHHHh-----cCCEEEEEcCCCccccch-HHHHH--HHhCCceEeeCCCCHHH
Confidence                              01244455555431     233566665554443  6 88998  884  378999999999


Q ss_pred             HHHHHHHhcC
Q 037859          383 FKVLAKNYLD  392 (504)
Q Consensus       383 ~~~i~~~~l~  392 (504)
                      +..++++...
T Consensus       152 ~~~~l~k~~~  161 (214)
T PRK06620        152 IKILIFKHFS  161 (214)
T ss_pred             HHHHHHHHHH
Confidence            9999887653

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

Probab=99.15  E-value=2.1e-10  Score=118.57  Aligned_cols=51  Identities=25%  Similarity=0.417  Sum_probs=41.9

Q ss_pred             cccChhHHHHHHHhh------------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccc
Q 037859          211 LAMETKKKEEIKKDL------------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT  261 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l------------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  261 (504)
                      ++++++.|+.+...+                  ++++||+||||||||++|+++|..++.+++.++++.
T Consensus        17 IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~   85 (443)
T PRK05201         17 IIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATK   85 (443)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchh
Confidence            556666666655444                  468999999999999999999999999999998763

>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=99.14  E-value=8.6e-11  Score=110.77  Aligned_cols=43  Identities=28%  Similarity=0.552  Sum_probs=36.5

Q ss_pred             ccccccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhc
Q 037859          208 FDTLAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      |++|.+++..|..+.-..  ..++||+||||||||++|++++..|
T Consensus         2 f~dI~GQe~aKrAL~iAAaG~h~lLl~GppGtGKTmlA~~l~~lL   46 (206)
T PF01078_consen    2 FSDIVGQEEAKRALEIAAAGGHHLLLIGPPGTGKTMLARRLPSLL   46 (206)
T ss_dssp             TCCSSSTHHHHHHHHHHHHCC--EEEES-CCCTHHHHHHHHHHCS
T ss_pred             hhhhcCcHHHHHHHHHHHcCCCCeEEECCCCCCHHHHHHHHHHhC
Confidence            788999999999888776  7889999999999999999999876

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.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.12  E-value=7.5e-10  Score=112.40  Aligned_cols=142  Identities=18%  Similarity=0.247  Sum_probs=106.3

Q ss_pred             cccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc------------------EEEEecccc-
Q 037859          207 TFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD------------------VYDLELTTV-  262 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~------------------i~~l~~~~~-  262 (504)
                      .|+++++++..++.+...+     +.+|||+||+|+||+++|.++|+.+.+.                  ++.+..... 
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~   81 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQH   81 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccc
Confidence            4789999999999999888     6779999999999999999999987321                  232222100 


Q ss_pred             ----------------------CChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccc
Q 037859          263 ----------------------QDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEK  314 (504)
Q Consensus       263 ----------------------~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~  314 (504)
                                            -.-+.++.+....      ...-|++||++|.+                         
T Consensus        82 ~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m-------------------------  136 (314)
T PRK07399         82 QGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETM-------------------------  136 (314)
T ss_pred             cccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhc-------------------------
Confidence                                  0112445543332      25689999999985                         


Q ss_pred             cccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          315 KEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       315 ~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                                +....+.||..|+..    + ..++|++|+.++.|-|+++.  |+ ..|.|+.++.++...++....
T Consensus       137 ----------~~~aaNaLLK~LEEP----p-~~~fILi~~~~~~Ll~TI~S--Rc-q~i~f~~l~~~~~~~~L~~~~  195 (314)
T PRK07399        137 ----------NEAAANALLKTLEEP----G-NGTLILIAPSPESLLPTIVS--RC-QIIPFYRLSDEQLEQVLKRLG  195 (314)
T ss_pred             ----------CHHHHHHHHHHHhCC----C-CCeEEEEECChHhCcHHHHh--hc-eEEecCCCCHHHHHHHHHHhh
Confidence                      233567899988764    2 34788888899999999999  88 689999999999988888764

>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=99.12  E-value=2.4e-10  Score=110.35  Aligned_cols=129  Identities=22%  Similarity=0.292  Sum_probs=80.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccccCCh-------HHHHHHHHhccCCeEEEEeccccccccccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDN-------SELRSLLIDTSSKSILVIEDIDCSLDLTGQ  295 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~-------~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~  295 (504)
                      .++||||+|+|||.|..|+++++     +..+.+++...+...       ..+..+......--+|+|||+|.+.   + 
T Consensus        36 ~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~~~~~~~~~~~~~~~~~~DlL~iDDi~~l~---~-  111 (219)
T PF00308_consen   36 PLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFADALRDGEIEEFKDRLRSADLLIIDDIQFLA---G-  111 (219)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHHHHHTTSHHHHHHHHCTSSEEEEETGGGGT---T-
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHHHHHHcccchhhhhhhhcCCEEEEecchhhc---C-
Confidence            47899999999999999999875     566888876553210       1122333444577899999999862   1 


Q ss_pred             ccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCC---CCChhhhcCCCce--
Q 037859          296 REKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVD---KLDPALIRRGRMD--  370 (504)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e---~Ld~ALlRpGR~d--  370 (504)
                                                   ...+...|...++.+..  .+..+||.+...|.   .++|.|..  ||.  
T Consensus       112 -----------------------------~~~~q~~lf~l~n~~~~--~~k~li~ts~~~P~~l~~~~~~L~S--Rl~~G  158 (219)
T PF00308_consen  112 -----------------------------KQRTQEELFHLFNRLIE--SGKQLILTSDRPPSELSGLLPDLRS--RLSWG  158 (219)
T ss_dssp             -----------------------------HHHHHHHHHHHHHHHHH--TTSEEEEEESS-TTTTTTS-HHHHH--HHHCS
T ss_pred             -----------------------------chHHHHHHHHHHHHHHh--hCCeEEEEeCCCCccccccChhhhh--hHhhc
Confidence                                         11233444444444422  23345444445554   35788888  774  


Q ss_pred             eEEEecCCCHHHHHHHHHHhcCc
Q 037859          371 KHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       371 ~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      ..+.+..|+.+.+..|++.....
T Consensus       159 l~~~l~~pd~~~r~~il~~~a~~  181 (219)
T PF00308_consen  159 LVVELQPPDDEDRRRILQKKAKE  181 (219)
T ss_dssp             EEEEE----HHHHHHHHHHHHHH
T ss_pred             chhhcCCCCHHHHHHHHHHHHHH
Confidence            58899999999999999988643

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.

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

Probab=99.10  E-value=8.3e-10  Score=112.31  Aligned_cols=120  Identities=22%  Similarity=0.290  Sum_probs=89.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcC------------------------CcEEEEeccccCC----hHHHHHHHHhc--
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLN------------------------YDVYDLELTTVQD----NSELRSLLIDT--  275 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~------------------------~~i~~l~~~~~~~----~~~l~~l~~~~--  275 (504)
                      +..+||+||||||||++|.++|+.+.                        .+++.++.+....    .+.++.+....  
T Consensus        24 ~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~~i~~~~vr~~~~~~~~  103 (325)
T COG0470          24 PHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKIDIIVEQVRELAEFLSE  103 (325)
T ss_pred             CceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCCCcchHHHHHHHHHHhcc
Confidence            44699999999999999999999986                        4788888777654    23444444333  


Q ss_pred             ----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEE
Q 037859          276 ----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVF  351 (504)
Q Consensus       276 ----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~  351 (504)
                          ...-|++|||+|.+-                                   ....+.++..+..-    .....+|+
T Consensus       104 ~~~~~~~kviiidead~mt-----------------------------------~~A~nallk~lEep----~~~~~~il  144 (325)
T COG0470         104 SPLEGGYKVVIIDEADKLT-----------------------------------EDAANALLKTLEEP----PKNTRFIL  144 (325)
T ss_pred             CCCCCCceEEEeCcHHHHh-----------------------------------HHHHHHHHHHhccC----CCCeEEEE
Confidence                245799999999862                                   23567777777643    45578999


Q ss_pred             ecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHH
Q 037859          352 TTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLA  387 (504)
Q Consensus       352 tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~  387 (504)
                      +||.+..+-|.+..  |+ ..+.|..|+...+....
T Consensus       145 ~~n~~~~il~tI~S--Rc-~~i~f~~~~~~~~i~~~  177 (325)
T COG0470         145 ITNDPSKILPTIRS--RC-QRIRFKPPSRLEAIAWL  177 (325)
T ss_pred             EcCChhhccchhhh--cc-eeeecCCchHHHHHHHh
Confidence            99999999999998  88 68899886655544333

>smart00763 AAA_PrkA PrkA AAA domain

Probab=99.10  E-value=9.4e-10  Score=112.09  Aligned_cols=54  Identities=24%  Similarity=0.339  Sum_probs=47.5

Q ss_pred             cccc-ccccChhHHHHHHHhh----------cccccccCCCCCcHHHHHHHHHHhcCC-------cEEEEec
Q 037859          206 ATFD-TLAMETKKKEEIKKDL----------KKGYLLYGPPGTGKSTMIAAMANFLNY-------DVYDLEL  259 (504)
Q Consensus       206 ~~f~-~~~~~~~~k~~i~~~l----------~rg~LL~GPpGtGKTsla~aiA~~l~~-------~i~~l~~  259 (504)
                      ..|+ ++.+.++.++++++++          ++.++|+||||||||++|++||+.++.       ++|.+..
T Consensus        47 ~~F~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       47 RFFDHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             cccchhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            3466 7888999999999988          466899999999999999999999976       8999877

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

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.10  E-value=3.8e-10  Score=120.08  Aligned_cols=129  Identities=16%  Similarity=0.307  Sum_probs=86.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccccCCh---------HHHHHHHHhccCCeEEEEecccccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDN---------SELRSLLIDTSSKSILVIEDIDCSLDL  292 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~---------~~l~~l~~~~~~~~Il~iDeiD~~~~~  292 (504)
                      ++++||||+|||||+|++|+++++     +..+++++...+...         ..+...........+|+||||+.+.  
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l~--  219 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDILQKTHKEIEQFKNEICQNDVLIIDDVQFLS--  219 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHHhhhHHHHHHHHhccCCEEEEecccccc--
Confidence            568999999999999999999965     467777776553210         1222222333566799999999752  


Q ss_pred             cccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCC-C---CCChhhhcCCC
Q 037859          293 TGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYV-D---KLDPALIRRGR  368 (504)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~-e---~Ld~ALlRpGR  368 (504)
                       ++                           ......+-.++|.+..   .  + ..+|+|+|.+ +   .+++.|..  |
T Consensus       220 -~k---------------------------~~~~e~lf~l~N~~~~---~--~-k~iIltsd~~P~~l~~l~~rL~S--R  263 (450)
T PRK14087        220 -YK---------------------------EKTNEIFFTIFNNFIE---N--D-KQLFFSSDKSPELLNGFDNRLIT--R  263 (450)
T ss_pred             -CC---------------------------HHHHHHHHHHHHHHHH---c--C-CcEEEECCCCHHHHhhccHHHHH--H
Confidence             11                           1123344455554422   1  2 2467776643 2   46889999  8


Q ss_pred             c--eeEEEecCCCHHHHHHHHHHhcCc
Q 037859          369 M--DKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       369 ~--d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      |  ...+.+..|+.+++..|+++.+..
T Consensus       264 ~~~Gl~~~L~~pd~e~r~~iL~~~~~~  290 (450)
T PRK14087        264 FNMGLSIAIQKLDNKTATAIIKKEIKN  290 (450)
T ss_pred             HhCCceeccCCcCHHHHHHHHHHHHHh
Confidence            8  478889999999999999988754

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

Probab=99.10  E-value=7.3e-10  Score=118.94  Aligned_cols=91  Identities=29%  Similarity=0.440  Sum_probs=76.9

Q ss_pred             cceeeecCCCccccccccChhHHHHHHHhh--------------------------------------cccccccCCCCC
Q 037859          196 KWSHVFFEHPATFDTLAMETKKKEEIKKDL--------------------------------------KKGYLLYGPPGT  237 (504)
Q Consensus       196 ~w~~~~~~~p~~f~~~~~~~~~k~~i~~~l--------------------------------------~rg~LL~GPpGt  237 (504)
                      .|.  .--.|+.|.++..++..-..++.+|                                      ++-+||+||||-
T Consensus       260 LWV--dky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGl  337 (877)
T KOG1969|consen  260 LWV--DKYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGL  337 (877)
T ss_pred             eee--cccChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCC
Confidence            564  4457888999999998888888877                                      455899999999


Q ss_pred             cHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhc----------cCCeEEEEecccc
Q 037859          238 GKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDT----------SSKSILVIEDIDC  288 (504)
Q Consensus       238 GKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~----------~~~~Il~iDeiD~  288 (504)
                      ||||||+.||++.||.++.++.++-.+...++..+..+          .+|.+|+|||||-
T Consensus       338 GKTTLAHViAkqaGYsVvEINASDeRt~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDG  398 (877)
T KOG1969|consen  338 GKTTLAHVIAKQAGYSVVEINASDERTAPMVKEKIENAVQNHSVLDADSRPVCLVIDEIDG  398 (877)
T ss_pred             ChhHHHHHHHHhcCceEEEecccccccHHHHHHHHHHHHhhccccccCCCcceEEEecccC
Confidence            99999999999999999999999987777776655443          4789999999996

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.08  E-value=6.2e-10  Score=117.22  Aligned_cols=141  Identities=16%  Similarity=0.139  Sum_probs=87.9

Q ss_pred             ccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcCC--cEEEEeccccCChHHH------HH-----HHHh--
Q 037859          212 AMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLNY--DVYDLELTTVQDNSEL------RS-----LLID--  274 (504)
Q Consensus       212 ~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l~~~~~~~~~~l------~~-----l~~~--  274 (504)
                      .+.++..+.++..+  ...+||+||||||||++|+++|..++.  ++..+.+... +..++      ..     .|..  
T Consensus        23 ~gre~vI~lll~aalag~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~ft-tp~DLfG~l~i~~~~~~g~f~r~~  101 (498)
T PRK13531         23 YERSHAIRLCLLAALSGESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFS-TPEEVFGPLSIQALKDEGRYQRLT  101 (498)
T ss_pred             cCcHHHHHHHHHHHccCCCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeec-CcHHhcCcHHHhhhhhcCchhhhc
Confidence            44455555444444  666999999999999999999997753  2333322210 11111      11     1111  


Q ss_pred             ---ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhc-Ccccc-----CCC
Q 037859          275 ---TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID-GLWSA-----SGE  345 (504)
Q Consensus       275 ---~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD-g~~~~-----~~~  345 (504)
                         .+...|+|+|||..+                                   +..+.+.||..|. +....     .-.
T Consensus       102 ~G~L~~A~lLfLDEI~ra-----------------------------------sp~~QsaLLeam~Er~~t~g~~~~~lp  146 (498)
T PRK13531        102 SGYLPEAEIVFLDEIWKA-----------------------------------GPAILNTLLTAINERRFRNGAHEEKIP  146 (498)
T ss_pred             CCccccccEEeecccccC-----------------------------------CHHHHHHHHHHHHhCeEecCCeEEeCC
Confidence               112348999999764                                   3457888888883 22111     112


Q ss_pred             ceEEEEecCCCC---CCChhhhcCCCceeEEEecCCC-HHHHHHHHHHh
Q 037859          346 ERIIVFTTNYVD---KLDPALIRRGRMDKHIEMSYCC-FEAFKVLAKNY  390 (504)
Q Consensus       346 ~~ivI~tTN~~e---~Ld~ALlRpGR~d~~I~~~~p~-~e~~~~i~~~~  390 (504)
                      .+++++|||...   ...+|+..  ||-++|.+++|+ .+..+.|+...
T Consensus       147 ~rfiv~ATN~LPE~g~~leAL~D--RFliri~vp~l~~~~~e~~lL~~~  193 (498)
T PRK13531        147 MRLLVTASNELPEADSSLEALYD--RMLIRLWLDKVQDKANFRSMLTSQ  193 (498)
T ss_pred             CcEEEEECCCCcccCCchHHhHh--hEEEEEECCCCCchHHHHHHHHcc
Confidence            367888888432   23359999  999999999997 56767777653

>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=99.07  E-value=2.1e-09  Score=98.79  Aligned_cols=123  Identities=21%  Similarity=0.285  Sum_probs=86.9

Q ss_pred             ChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcC-----------------------CcEEEEecccc---
Q 037859          214 ETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLN-----------------------YDVYDLELTTV---  262 (504)
Q Consensus       214 ~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~-----------------------~~i~~l~~~~~---  262 (504)
                      ++...+.+...+     +..|||+||+|+||+++|.++|+.+-                       .+++.++....   
T Consensus         2 q~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~   81 (162)
T PF13177_consen    2 QEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKKS   81 (162)
T ss_dssp             -HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSSS
T ss_pred             cHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccch
Confidence            344455555554     67799999999999999999998762                       24555654433   


Q ss_pred             CChHHHHHHHHhcc------CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhh
Q 037859          263 QDNSELRSLLIDTS------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI  336 (504)
Q Consensus       263 ~~~~~l~~l~~~~~------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~l  336 (504)
                      -..+.++.+.....      ..-|++|||+|.+                                   +....+.||..|
T Consensus        82 i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l-----------------------------------~~~a~NaLLK~L  126 (162)
T PF13177_consen   82 IKIDQIREIIEFLSLSPSEGKYKVIIIDEADKL-----------------------------------TEEAQNALLKTL  126 (162)
T ss_dssp             BSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS------------------------------------HHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHhcCCceEEEeehHhhh-----------------------------------hHHHHHHHHHHh
Confidence            24466776665542      4679999999986                                   345788999999


Q ss_pred             cCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCC
Q 037859          337 DGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYC  378 (504)
Q Consensus       337 Dg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p  378 (504)
                      +..    +...++|++|+.++.|-|.++.  |+ ..|.|+..
T Consensus       127 Eep----p~~~~fiL~t~~~~~il~TI~S--Rc-~~i~~~~l  161 (162)
T PF13177_consen  127 EEP----PENTYFILITNNPSKILPTIRS--RC-QVIRFRPL  161 (162)
T ss_dssp             HST----TTTEEEEEEES-GGGS-HHHHT--TS-EEEEE---
T ss_pred             cCC----CCCEEEEEEECChHHChHHHHh--hc-eEEecCCC
Confidence            864    4568999999999999999999  88 67877653

...

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.07  E-value=3.7e-10  Score=125.17  Aligned_cols=149  Identities=19%  Similarity=0.252  Sum_probs=102.5

Q ss_pred             cccccccChhHHHHHHHhh--c--ccccccCCCCCcHHHHHHHHHHhc--------------------------------
Q 037859          207 TFDTLAMETKKKEEIKKDL--K--KGYLLYGPPGTGKSTMIAAMANFL--------------------------------  250 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l--~--rg~LL~GPpGtGKTsla~aiA~~l--------------------------------  250 (504)
                      +|..+++++..|..++-.+  +  .||||+||||||||++|++|+..+                                
T Consensus         2 pf~~ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~~~~~~~~~~~~~~   81 (633)
T TIGR02442         2 PFTAIVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPEEWCEECRRKYRPS   81 (633)
T ss_pred             CcchhcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCccccChhhhhccccc
Confidence            4778999998887776655  2  479999999999999999999988                                


Q ss_pred             ---CCcEEEEecccc----CChHHHHHHHH-----------hccCCeEEEEecccccccccccccccccccccccccCcc
Q 037859          251 ---NYDVYDLELTTV----QDNSELRSLLI-----------DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPI  312 (504)
Q Consensus       251 ---~~~i~~l~~~~~----~~~~~l~~l~~-----------~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~  312 (504)
                         ..+++.+.++..    .+..++.+.+.           ......|||||||+.+                       
T Consensus        82 ~~~~~pfv~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~L~~A~~GiL~lDEi~~l-----------------------  138 (633)
T TIGR02442        82 EQRPVPFVNLPLGATEDRVVGSLDIERALREGEKAFQPGLLAEAHRGILYIDEVNLL-----------------------  138 (633)
T ss_pred             ccCCCCeeeCCCCCcHHHcCCcccHHHHhhcCCeeecCcceeecCCCeEEeChhhhC-----------------------
Confidence               235555444321    11222333221           1125579999999986                       


Q ss_pred             cccccccCCCcchhhHHHHHhhhhc-Cc--------cccCCCceEEEEecCCCC-CCChhhhcCCCceeEEEecCCC-HH
Q 037859          313 EKKEKEDGGSKKSKVTLSGLLNFID-GL--------WSASGEERIIVFTTNYVD-KLDPALIRRGRMDKHIEMSYCC-FE  381 (504)
Q Consensus       313 ~~~~~~~~~~~~~~~~ls~lL~~lD-g~--------~~~~~~~~ivI~tTN~~e-~Ld~ALlRpGR~d~~I~~~~p~-~e  381 (504)
                                  +..+++.||+.|+ |.        ........++|+|+|..+ .|.++|+.  ||+++|.++++. .+
T Consensus       139 ------------~~~~q~~Ll~~le~g~~~v~r~g~~~~~~~~~~lIat~np~eg~l~~~L~d--R~~l~i~v~~~~~~~  204 (633)
T TIGR02442       139 ------------DDHLVDVLLDAAAMGVNRVEREGLSVSHPARFVLIGTMNPEEGDLRPQLLD--RFGLCVDVAAPRDPE  204 (633)
T ss_pred             ------------CHHHHHHHHHHHhcCCEEEEECCceeeecCCeEEEEecCCCCCCCCHHHHh--hcceEEEccCCCchH
Confidence                        2346677787775 21        111123467888999654 68999999  999999999885 57


Q ss_pred             HHHHHHHHhcC
Q 037859          382 AFKVLAKNYLD  392 (504)
Q Consensus       382 ~~~~i~~~~l~  392 (504)
                      ++.++++..+.
T Consensus       205 ~~~~il~~~~~  215 (633)
T TIGR02442       205 ERVEIIRRRLA  215 (633)
T ss_pred             HHHHHHHHHHh
Confidence            77778776443

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=99.05  E-value=7.4e-10  Score=96.77  Aligned_cols=64  Identities=28%  Similarity=0.450  Sum_probs=47.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCc---EEEEeccccCC--------------------hHHHHHHHHhcc--CCeEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYD---VYDLELTTVQD--------------------NSELRSLLIDTS--SKSIL  281 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~---i~~l~~~~~~~--------------------~~~l~~l~~~~~--~~~Il  281 (504)
                      +.++|+||||||||++++++|..+...   ++.+++.....                    .......+..+.  .+.||
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi   82 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDVL   82 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCCEE
Confidence            568999999999999999999999875   77777765321                    122333333332  35999


Q ss_pred             EEecccccc
Q 037859          282 VIEDIDCSL  290 (504)
Q Consensus       282 ~iDeiD~~~  290 (504)
                      +|||++.+.
T Consensus        83 iiDei~~~~   91 (148)
T smart00382       83 ILDEITSLL   91 (148)
T ss_pred             EEECCcccC
Confidence            999999863

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.

>PRK08116 hypothetical protein; Validated

Probab=99.05  E-value=8.1e-10  Score=109.80  Aligned_cols=116  Identities=20%  Similarity=0.330  Sum_probs=74.7

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCC----------hHHHHHHHHhccCCeEEEEeccccccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQD----------NSELRSLLIDTSSKSILVIEDIDCSLDLT  293 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~----------~~~l~~l~~~~~~~~Il~iDeiD~~~~~~  293 (504)
                      +|++||||||||||+|+.|||+++   +.+++.++...+..          ......++.......+|+|||+...    
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l~~~dlLviDDlg~e----  190 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKSTYKSSGKEDENEIIRSLVNADLLILDDLGAE----  190 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhccccccHHHHHHHhcCCCEEEEecccCC----
Confidence            569999999999999999999986   67888887654311          0112233444456679999999641    


Q ss_pred             ccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCC-----CCChhhhcCCC
Q 037859          294 GQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVD-----KLDPALIRRGR  368 (504)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e-----~Ld~ALlRpGR  368 (504)
                                                   ..+......|.+.||....   .+..+|+|||...     .+++++..  |
T Consensus       191 -----------------------------~~t~~~~~~l~~iin~r~~---~~~~~IiTsN~~~~eL~~~~~~ri~s--R  236 (268)
T PRK08116        191 -----------------------------RDTEWAREKVYNIIDSRYR---KGLPTIVTTNLSLEELKNQYGKRIYD--R  236 (268)
T ss_pred             -----------------------------CCCHHHHHHHHHHHHHHHH---CCCCEEEECCCCHHHHHHHHhHHHHH--H
Confidence                                         0012234555666665432   2356888998652     25778887  7


Q ss_pred             c---eeEEEecCCCH
Q 037859          369 M---DKHIEMSYCCF  380 (504)
Q Consensus       369 ~---d~~I~~~~p~~  380 (504)
                      +   ...|.|.-++.
T Consensus       237 l~e~~~~v~~~g~d~  251 (268)
T PRK08116        237 ILEMCTPVENEGKSY  251 (268)
T ss_pred             HHHcCEEEEeeCcCh
Confidence            4   34566666654

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.04  E-value=1.9e-09  Score=110.31  Aligned_cols=123  Identities=17%  Similarity=0.213  Sum_probs=92.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCc-------------------------EEEEeccc-------------------
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYD-------------------------VYDLELTT-------------------  261 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~-------------------------i~~l~~~~-------------------  261 (504)
                      +.+|||+||+|+||+++|+++|..+.+.                         ++.+....                   
T Consensus        21 ~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~~~~~~~~~~~~~~~~  100 (342)
T PRK06964         21 PHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAEAPGAADEAKEADADE  100 (342)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccccccccccccchhhc
Confidence            7899999999999999999999887442                         22221110                   


Q ss_pred             ----------cCChHHHHHHHHhcc------CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcch
Q 037859          262 ----------VQDNSELRSLLIDTS------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKS  325 (504)
Q Consensus       262 ----------~~~~~~l~~l~~~~~------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  325 (504)
                                .-.-++++.+.....      ..-|++||++|.+                                   +
T Consensus       101 ~~~k~~~~~~~I~idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m-----------------------------------~  145 (342)
T PRK06964        101 GGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGARVVVLYPAEAL-----------------------------------N  145 (342)
T ss_pred             ccccccccccccCHHHHHHHHHHhccCCccCCceEEEEechhhc-----------------------------------C
Confidence                      012245555554432      3458889988875                                   3


Q ss_pred             hhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHh
Q 037859          326 KVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       326 ~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~  390 (504)
                      ....+.||..|+.-    +++.++|++|++++.|.|.+++  |+ ..|.|+.|+.++....+...
T Consensus       146 ~~AaNaLLKtLEEP----p~~t~fiL~t~~~~~LLpTI~S--Rc-q~i~~~~~~~~~~~~~L~~~  203 (342)
T PRK06964        146 VAAANALLKTLEEP----PPGTVFLLVSARIDRLLPTILS--RC-RQFPMTVPAPEAAAAWLAAQ  203 (342)
T ss_pred             HHHHHHHHHHhcCC----CcCcEEEEEECChhhCcHHHHh--cC-EEEEecCCCHHHHHHHHHHc
Confidence            44678999999853    4668999999999999999999  98 78999999999988877654

>PRK06526 transposase; Provisional

Probab=99.03  E-value=3.1e-10  Score=111.80  Aligned_cols=121  Identities=12%  Similarity=0.173  Sum_probs=69.1

Q ss_pred             hhHHHHHhhhhhHHhhhccceecccCCCCCccCccCccceeeecCCCccccccccChhHHHHHH--Hhh--cccccccCC
Q 037859          159 PYVNHVLAGGKAITVKNRQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFDTLAMETKKKEEIK--KDL--KKGYLLYGP  234 (504)
Q Consensus       159 ~yl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~~f~~~~~~~~~k~~i~--~~l--~rg~LL~GP  234 (504)
                      .||..+++.....+..++..+....+..+.-..+.+..|...|-          ++......+.  +++  +.+++|+||
T Consensus        37 e~l~~ll~~E~~~R~~~~~~~~lk~a~~p~~~~le~fd~~~~~~----------~~~~~~~~l~~~~fi~~~~nlll~Gp  106 (254)
T PRK06526         37 EFLAACLQREVAARESHGGEGRIRAARFPARKSLEEFDFDHQRS----------LKRDTIAHLGTLDFVTGKENVVFLGP  106 (254)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCChhhccCccCCC----------cchHHHHHHhcCchhhcCceEEEEeC
Confidence            46777887777766666655555444333222222222322111          1111111110  111  678999999


Q ss_pred             CCCcHHHHHHHHHHhc---CCcEEEEeccccC-------ChHHHHHHHHhccCCeEEEEeccccc
Q 037859          235 PGTGKSTMIAAMANFL---NYDVYDLELTTVQ-------DNSELRSLLIDTSSKSILVIEDIDCS  289 (504)
Q Consensus       235 pGtGKTsla~aiA~~l---~~~i~~l~~~~~~-------~~~~l~~l~~~~~~~~Il~iDeiD~~  289 (504)
                      ||||||+|+.+|+.++   |+.++......+.       ....+...+.......+|+|||++..
T Consensus       107 ~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~l~~~dlLIIDD~g~~  171 (254)
T PRK06526        107 PGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAGRLQAELVKLGRYPLLIVDEVGYI  171 (254)
T ss_pred             CCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHHhccCCEEEEcccccC
Confidence            9999999999998875   6666655544321       11123344444566789999999874

>PRK08181 transposase; Validated

Probab=99.03  E-value=4.6e-10  Score=111.24  Aligned_cols=64  Identities=28%  Similarity=0.470  Sum_probs=47.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCC-------hHHHHHHHHhccCCeEEEEeccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQD-------NSELRSLLIDTSSKSILVIEDIDCS  289 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~-------~~~l~~l~~~~~~~~Il~iDeiD~~  289 (504)
                      +.+++|+||||||||+|+.|+|+++   |+.+++++...+..       ...+.+.+....+..+|+|||++..
T Consensus       106 ~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l~~~dLLIIDDlg~~  179 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKLDKFDLLILDDLAYV  179 (269)
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHHhcCCEEEEeccccc
Confidence            6779999999999999999999765   67777776654311       1223445555567889999999874

>smart00350 MCM minichromosome maintenance proteins

Probab=99.01  E-value=9.6e-10  Score=118.99  Aligned_cols=144  Identities=17%  Similarity=0.207  Sum_probs=93.8

Q ss_pred             cccChhHHHHHHHhh-c------------c---cccccCCCCCcHHHHHHHHHHhcCCcEEEE----eccccCChHHHHH
Q 037859          211 LAMETKKKEEIKKDL-K------------K---GYLLYGPPGTGKSTMIAAMANFLNYDVYDL----ELTTVQDNSELRS  270 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l-~------------r---g~LL~GPpGtGKTsla~aiA~~l~~~i~~l----~~~~~~~~~~l~~  270 (504)
                      +.+.+..|..++-.+ .            |   .+||+|+||||||++++++++......|..    ++..+.. ..++.
T Consensus       205 i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~-~~~~~  283 (509)
T smart00350      205 IYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTA-AVTRD  283 (509)
T ss_pred             ccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccc-cceEc
Confidence            345566677666665 1            1   499999999999999999999876554432    1111111 11111


Q ss_pred             ----------HHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC--
Q 037859          271 ----------LLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG--  338 (504)
Q Consensus       271 ----------l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg--  338 (504)
                                -........+++|||+|.+                                   .....+.|+..|+.  
T Consensus       284 ~~~g~~~~~~G~l~~A~~Gil~iDEi~~l-----------------------------------~~~~q~~L~e~me~~~  328 (509)
T smart00350      284 PETREFTLEGGALVLADNGVCCIDEFDKM-----------------------------------DDSDRTAIHEAMEQQT  328 (509)
T ss_pred             cCcceEEecCccEEecCCCEEEEechhhC-----------------------------------CHHHHHHHHHHHhcCE
Confidence                      0111235789999999985                                   12345556666532  


Q ss_pred             -------ccccCCCceEEEEecCCCC-------------CCChhhhcCCCceeEEEe-cCCCHHHHHHHHHHhcC
Q 037859          339 -------LWSASGEERIIVFTTNYVD-------------KLDPALIRRGRMDKHIEM-SYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       339 -------~~~~~~~~~ivI~tTN~~e-------------~Ld~ALlRpGR~d~~I~~-~~p~~e~~~~i~~~~l~  392 (504)
                             ....-.....||+|+|..+             .|+|+|++  |||+.+.+ ++|+.+....|+++.+.
T Consensus       329 i~i~k~G~~~~l~~~~~viAa~NP~~g~y~~~~~~~~n~~l~~~lLs--RFdLi~~~~d~~~~~~d~~i~~~i~~  401 (509)
T smart00350      329 ISIAKAGITTTLNARCSVLAAANPIGGRYDPKLTPEENIDLPAPILS--RFDLLFVVLDEVDEERDRELAKHVVD  401 (509)
T ss_pred             EEEEeCCEEEEecCCcEEEEEeCCCCcccCCCcChhhccCCChHHhC--ceeeEEEecCCCChHHHHHHHHHHHH
Confidence                   2111123457899999764             58999999  99986655 88999999999988653

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

Probab=99.00  E-value=7.1e-09  Score=107.25  Aligned_cols=143  Identities=18%  Similarity=0.280  Sum_probs=100.9

Q ss_pred             cccChhHHHHHHHhh--------cccccccCCCCCcHHHHHHHHHHhcCCc-----EEEEeccccCChHHH-HHH-----
Q 037859          211 LAMETKKKEEIKKDL--------KKGYLLYGPPGTGKSTMIAAMANFLNYD-----VYDLELTTVQDNSEL-RSL-----  271 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l--------~rg~LL~GPpGtGKTsla~aiA~~l~~~-----i~~l~~~~~~~~~~l-~~l-----  271 (504)
                      +...+++.+++...+        |..+++|||||||||.+++-++.++.-.     ++++||....+...+ .++     
T Consensus        19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~   98 (366)
T COG1474          19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLG   98 (366)
T ss_pred             ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcC
Confidence            555667777777666        6669999999999999999999988443     888998776443222 112     


Q ss_pred             -------------------HHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHH
Q 037859          272 -------------------LIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGL  332 (504)
Q Consensus       272 -------------------~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~l  332 (504)
                                         +.......||++||+|.++.   .                             ...++-.|
T Consensus        99 ~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~---~-----------------------------~~~~LY~L  146 (366)
T COG1474          99 KVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVD---K-----------------------------DGEVLYSL  146 (366)
T ss_pred             CCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhcc---c-----------------------------cchHHHHH
Confidence                               22223567999999999852   0                             00355556


Q ss_pred             hhhhcCccccCCCceEEEEecCCC---CCCChhhhcCCCc-eeEEEecCCCHHHHHHHHHHhc
Q 037859          333 LNFIDGLWSASGEERIIVFTTNYV---DKLDPALIRRGRM-DKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       333 L~~lDg~~~~~~~~~ivI~tTN~~---e~Ld~ALlRpGR~-d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      +..-+..    ...+++|+.+|..   +.+||.+.+  |+ ..+|.|++.+.+|...|++.-.
T Consensus       147 ~r~~~~~----~~~v~vi~i~n~~~~~~~ld~rv~s--~l~~~~I~F~pY~a~el~~Il~~R~  203 (366)
T COG1474         147 LRAPGEN----KVKVSIIAVSNDDKFLDYLDPRVKS--SLGPSEIVFPPYTAEELYDILRERV  203 (366)
T ss_pred             Hhhcccc----ceeEEEEEEeccHHHHHHhhhhhhh--ccCcceeeeCCCCHHHHHHHHHHHH
Confidence            5544332    3446788888865   578898887  44 3568999999999999988765

>PRK09087 hypothetical protein; Validated

Probab=98.98  E-value=2e-09  Score=104.32  Aligned_cols=139  Identities=14%  Similarity=0.155  Sum_probs=82.9

Q ss_pred             ccccccccCh-hH-HHHHHHhh----cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCe
Q 037859          206 ATFDTLAMET-KK-KEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKS  279 (504)
Q Consensus       206 ~~f~~~~~~~-~~-k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~  279 (504)
                      .+|++++..+ .. --.++..+    .+.++||||+|+|||+|+++++...+..++  +...+.. .-+    . .....
T Consensus        18 ~~~~~Fi~~~~N~~a~~~l~~~~~~~~~~l~l~G~~GsGKThLl~~~~~~~~~~~i--~~~~~~~-~~~----~-~~~~~   89 (226)
T PRK09087         18 YGRDDLLVTESNRAAVSLVDHWPNWPSPVVVLAGPVGSGKTHLASIWREKSDALLI--HPNEIGS-DAA----N-AAAEG   89 (226)
T ss_pred             CChhceeecCchHHHHHHHHhcccCCCCeEEEECCCCCCHHHHHHHHHHhcCCEEe--cHHHcch-HHH----H-hhhcC
Confidence            5688887533 21 11122222    223899999999999999999988765533  3322211 111    1 11225


Q ss_pred             EEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCC--
Q 037859          280 ILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVD--  357 (504)
Q Consensus       280 Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e--  357 (504)
                      +|+|||+|.+-   .                              ....+-.++|.+.   .  .+..+||.++..+.  
T Consensus        90 ~l~iDDi~~~~---~------------------------------~~~~lf~l~n~~~---~--~g~~ilits~~~p~~~  131 (226)
T PRK09087         90 PVLIEDIDAGG---F------------------------------DETGLFHLINSVR---Q--AGTSLLMTSRLWPSSW  131 (226)
T ss_pred             eEEEECCCCCC---C------------------------------CHHHHHHHHHHHH---h--CCCeEEEECCCChHHh
Confidence            88899999741   0                              1122344444432   1  12234444443333  


Q ss_pred             -CCChhhhcCCCce--eEEEecCCCHHHHHHHHHHhcC
Q 037859          358 -KLDPALIRRGRMD--KHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       358 -~Ld~ALlRpGR~d--~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                       ...|+|+.  |+.  ..+++..|+.+.+..++++.+.
T Consensus       132 ~~~~~dL~S--Rl~~gl~~~l~~pd~e~~~~iL~~~~~  167 (226)
T PRK09087        132 NVKLPDLKS--RLKAATVVEIGEPDDALLSQVIFKLFA  167 (226)
T ss_pred             ccccccHHH--HHhCCceeecCCCCHHHHHHHHHHHHH
Confidence             23688998  875  7899999999999999998874

>PRK12377 putative replication protein; Provisional

Probab=98.98  E-value=1.7e-09  Score=105.93  Aligned_cols=63  Identities=25%  Similarity=0.426  Sum_probs=47.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCC--------hHHHHHHHHhccCCeEEEEecccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQD--------NSELRSLLIDTSSKSILVIEDIDC  288 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~--------~~~l~~l~~~~~~~~Il~iDeiD~  288 (504)
                      ..+++|+||||||||+|+.|||+++   +..+..+....+..        ......++.......+|+|||+..
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l~~~~~~~~~~~~~l~~l~~~dLLiIDDlg~  174 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRLHESYDNGQSGEKFLQELCKVDLLVLDEIGI  174 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHHHHHHhccchHHHHHHHhcCCCEEEEcCCCC
Confidence            3679999999999999999999988   56677776654321        112334555567888999999976

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.95  E-value=1.1e-08  Score=104.01  Aligned_cols=123  Identities=14%  Similarity=0.159  Sum_probs=93.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC------------------------cEEEEecc--ccCChHHHHHHHHhc----
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DVYDLELT--TVQDNSELRSLLIDT----  275 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i~~l~~~--~~~~~~~l~~l~~~~----  275 (504)
                      +.+|||+||+|+||+++|+++|..+.+                        +++.+...  ..-.-+.+|.+....    
T Consensus        24 ~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~id~iR~l~~~~~~~~  103 (325)
T PRK06871         24 HHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIGVDQVREINEKVSQHA  103 (325)
T ss_pred             ceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCCCCHHHHHHHHHHHhhcc
Confidence            678999999999999999999988733                        24444321  112345666654443    


Q ss_pred             --cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEec
Q 037859          276 --SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTT  353 (504)
Q Consensus       276 --~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tT  353 (504)
                        ...-|++||++|.+                                   +....+.||..|+.-    ++..++|++|
T Consensus       104 ~~g~~KV~iI~~a~~m-----------------------------------~~~AaNaLLKtLEEP----p~~~~fiL~t  144 (325)
T PRK06871        104 QQGGNKVVYIQGAERL-----------------------------------TEAAANALLKTLEEP----RPNTYFLLQA  144 (325)
T ss_pred             ccCCceEEEEechhhh-----------------------------------CHHHHHHHHHHhcCC----CCCeEEEEEE
Confidence              24569999999986                                   344678899998853    4668999999


Q ss_pred             CCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHh
Q 037859          354 NYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       354 N~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~  390 (504)
                      +.++.|.|.++.  |+ .++.|+.|+.++....+...
T Consensus       145 ~~~~~llpTI~S--RC-~~~~~~~~~~~~~~~~L~~~  178 (325)
T PRK06871        145 DLSAALLPTIYS--RC-QTWLIHPPEEQQALDWLQAQ  178 (325)
T ss_pred             CChHhCchHHHh--hc-eEEeCCCCCHHHHHHHHHHH
Confidence            999999999999  88 68999999998887766654

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.94  E-value=3.9e-09  Score=115.65  Aligned_cols=158  Identities=23%  Similarity=0.333  Sum_probs=98.6

Q ss_pred             cceeeecCCCccccccccChhHHHHHHHhh---------cccccccCCCCCcHHHHHHHHHHhcCCcEEE-Ee---cc--
Q 037859          196 KWSHVFFEHPATFDTLAMETKKKEEIKKDL---------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYD-LE---LT--  260 (504)
Q Consensus       196 ~w~~~~~~~p~~f~~~~~~~~~k~~i~~~l---------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~-l~---~~--  260 (504)
                      .|.  --..|..++.++++++..+.+...+         .+.++|+||||||||++++++|+.++..+.. .+   +.  
T Consensus        73 pW~--eKyrP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~npv~~~~~  150 (637)
T TIGR00602        73 PWV--EKYKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQ  150 (637)
T ss_pred             chH--HHhCCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHhhhhhhccc
Confidence            464  4557999999999999888877766         2338899999999999999999999865432 11   00  


Q ss_pred             ---------------cc-CChHHHHHHHHhc------------cCCeEEEEecccccccccccccccccccccccccCcc
Q 037859          261 ---------------TV-QDNSELRSLLIDT------------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPI  312 (504)
Q Consensus       261 ---------------~~-~~~~~l~~l~~~~------------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~  312 (504)
                                     .. .....+..++..+            ..+.||||||||.++.    +                
T Consensus       151 ~~~~~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~----r----------------  210 (637)
T TIGR00602       151 KNDHKVTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFY----R----------------  210 (637)
T ss_pred             ccccccchhhhhccccccchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhch----h----------------
Confidence                           00 1123334433322            3567999999998642    0                


Q ss_pred             cccccccCCCcchhhHHHHHhh-hhcCccccCCCceEEEEecC-CCC--------------CCChhhhcCCCceeEEEec
Q 037859          313 EKKEKEDGGSKKSKVTLSGLLN-FIDGLWSASGEERIIVFTTN-YVD--------------KLDPALIRRGRMDKHIEMS  376 (504)
Q Consensus       313 ~~~~~~~~~~~~~~~~ls~lL~-~lDg~~~~~~~~~ivI~tTN-~~e--------------~Ld~ALlRpGR~d~~I~~~  376 (504)
                                  ....+..+|. ....   .  +...+|+++| .+.              .|.++|+...|+ .+|.|.
T Consensus       211 ------------~~~~lq~lLr~~~~e---~--~~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv-~~I~Fn  272 (637)
T TIGR00602       211 ------------DTRALHEILRWKYVS---I--GRCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRV-SNISFN  272 (637)
T ss_pred             ------------hHHHHHHHHHHHhhc---C--CCceEEEEecCCccccccccccccchhcccCHhHhcccce-eEEEeC
Confidence                        1113444444 2111   1  1223333332 111              144788853477 589999


Q ss_pred             CCCHHHHHHHHHHhcCc
Q 037859          377 YCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       377 ~p~~e~~~~i~~~~l~~  393 (504)
                      ..+....+..++..+..
T Consensus       273 Pia~t~l~K~L~rIl~~  289 (637)
T TIGR00602       273 PIAPTIMKKFLNRIVTI  289 (637)
T ss_pred             CCCHHHHHHHHHHHHHh
Confidence            99999988888777643

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

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=98.94  E-value=1.2e-08  Score=112.02  Aligned_cols=128  Identities=16%  Similarity=0.222  Sum_probs=89.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCC--cEEEEecccc----CChHHHHHHHH-----------hccCCeEEEEeccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNY--DVYDLELTTV----QDNSELRSLLI-----------DTSSKSILVIEDIDCS  289 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l~~~~~----~~~~~l~~l~~-----------~~~~~~Il~iDeiD~~  289 (504)
                      .|+||.|+||||||+++++++..+..  ++..+.+...    -+.-.+...+.           ......+||||||+.+
T Consensus        17 g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~idl~~~~~~g~~~~~~G~L~~A~~GvL~lDEi~rl   96 (589)
T TIGR02031        17 GGVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGIDVEESLAGGQRVTQPGLLDEAPRGVLYVDMANLL   96 (589)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccchhhhhhhhcCcccCCCCCeeeCCCCcEeccchhhC
Confidence            47999999999999999999998865  4666664211    11111221111           1134579999999986


Q ss_pred             ccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC---------ccccCCCceEEEEecCCCC---
Q 037859          290 LDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG---------LWSASGEERIIVFTTNYVD---  357 (504)
Q Consensus       290 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg---------~~~~~~~~~ivI~tTN~~e---  357 (504)
                                                         +..+.+.|+..|+.         ..........+|+|+|..+   
T Consensus        97 -----------------------------------~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g  141 (589)
T TIGR02031        97 -----------------------------------DDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGG  141 (589)
T ss_pred             -----------------------------------CHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccC
Confidence                                               23467778887752         1111123467889999876   


Q ss_pred             CCChhhhcCCCceeEEEecCC-CHHHHHHHHHHhc
Q 037859          358 KLDPALIRRGRMDKHIEMSYC-CFEAFKVLAKNYL  391 (504)
Q Consensus       358 ~Ld~ALlRpGR~d~~I~~~~p-~~e~~~~i~~~~l  391 (504)
                      .|+++|+.  ||+++|.+.++ ..++|.+|+++++
T Consensus       142 ~L~~~Lld--Rf~l~v~~~~~~~~~er~eil~~~~  174 (589)
T TIGR02031       142 GLPDHLLD--RLALHVSLEDVASQDLRVEIVRRER  174 (589)
T ss_pred             CCCHHHHH--hccCeeecCCCCCHHHHHHHHHHHH
Confidence            79999999  99999999875 6677889988876

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.

>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=98.91  E-value=3.1e-09  Score=105.80  Aligned_cols=137  Identities=21%  Similarity=0.431  Sum_probs=83.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCc---EEEEeccccCChHHHHHHHHhc-------------cCCeEEEEeccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYD---VYDLELTTVQDNSELRSLLIDT-------------SSKSILVIEDIDCS  289 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~---i~~l~~~~~~~~~~l~~l~~~~-------------~~~~Il~iDeiD~~  289 (504)
                      ++.+||+||+|||||++++..-..+.-.   +..++++...+...+++.+...             .+++|+||||++.-
T Consensus        33 ~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~Tts~~~q~~ie~~l~k~~~~~~gP~~~k~lv~fiDDlN~p  112 (272)
T PF12775_consen   33 GRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQTTSNQLQKIIESKLEKRRGRVYGPPGGKKLVLFIDDLNMP  112 (272)
T ss_dssp             TEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TTHHHHHHHHCCCTTECECTTEEEEEESSSEEEEEEETTT-S
T ss_pred             CCcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCCCCHHHHHHHHhhcEEcCCCCCCCCCCCcEEEEEecccCCC
Confidence            7889999999999999999877666433   3456666665556666655432             25689999999872


Q ss_pred             ccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCC------CceEEEEecCCCC---CCC
Q 037859          290 LDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG------EERIIVFTTNYVD---KLD  360 (504)
Q Consensus       290 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~------~~~ivI~tTN~~e---~Ld  360 (504)
                      -     .                     +..+....-..+.++++. .|.++...      .++.+|+|+|...   .|+
T Consensus       113 ~-----~---------------------d~ygtq~~iElLRQ~i~~-~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is  165 (272)
T PF12775_consen  113 Q-----P---------------------DKYGTQPPIELLRQLIDY-GGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPIS  165 (272)
T ss_dssp             -----------------------------TTS--HHHHHHHHHHHC-SEEECTTTTEEEEECSEEEEEEESSTTT--SHH
T ss_pred             C-----C---------------------CCCCCcCHHHHHHHHHHh-cCcccCCCcEEEEEeeeEEEEecCCCCCCCCCC
Confidence            1     0                     011111122233333321 23333211      3467888888543   488


Q ss_pred             hhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          361 PALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       361 ~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      +.|+|  .| ..+.+++|+.+....|+..++.
T Consensus       166 ~R~~r--~f-~i~~~~~p~~~sl~~If~~il~  194 (272)
T PF12775_consen  166 PRFLR--HF-NILNIPYPSDESLNTIFSSILQ  194 (272)
T ss_dssp             HHHHT--TE-EEEE----TCCHHHHHHHHHHH
T ss_pred             hHHhh--he-EEEEecCCChHHHHHHHHHHHh
Confidence            99999  88 6899999999988888877653

>PRK04132 replication factor C small subunit; Provisional

Probab=98.91  E-value=1.1e-08  Score=114.89  Aligned_cols=121  Identities=14%  Similarity=0.159  Sum_probs=96.2

Q ss_pred             ccccC--CCCCcHHHHHHHHHHhc-----CCcEEEEeccccCChHHHHHHHHhc----c----CCeEEEEeccccccccc
Q 037859          229 YLLYG--PPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDNSELRSLLIDT----S----SKSILVIEDIDCSLDLT  293 (504)
Q Consensus       229 ~LL~G--PpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~~~l~~l~~~~----~----~~~Il~iDeiD~~~~~~  293 (504)
                      .+..|  |++.||||+|.|+|+++     +.+++.+|.++..+.+.++.++...    +    +.-|++|||+|.+    
T Consensus       567 ~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~~~~~~KVvIIDEaD~L----  642 (846)
T PRK04132        567 NFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADAL----  642 (846)
T ss_pred             hhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCcCCCCCEEEEEECcccC----
Confidence            46679  99999999999999998     5689999999866667777766542    1    2369999999996    


Q ss_pred             ccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEE
Q 037859          294 GQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHI  373 (504)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I  373 (504)
                                                     +....+.||..|+..    ++...+|++||+++.+.++|++  |+ ..+
T Consensus       643 -------------------------------t~~AQnALLk~lEep----~~~~~FILi~N~~~kIi~tIrS--RC-~~i  684 (846)
T PRK04132        643 -------------------------------TQDAQQALRRTMEMF----SSNVRFILSCNYSSKIIEPIQS--RC-AIF  684 (846)
T ss_pred             -------------------------------CHHHHHHHHHHhhCC----CCCeEEEEEeCChhhCchHHhh--hc-eEE
Confidence                                           123567788888753    3457899999999999999999  88 689


Q ss_pred             EecCCCHHHHHHHHHHhc
Q 037859          374 EMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       374 ~~~~p~~e~~~~i~~~~l  391 (504)
                      .|..|+.++....++...
T Consensus       685 ~F~~ls~~~i~~~L~~I~  702 (846)
T PRK04132        685 RFRPLRDEDIAKRLRYIA  702 (846)
T ss_pred             eCCCCCHHHHHHHHHHHH
Confidence            999999888777666554

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=98.90  E-value=2e-08  Score=101.73  Aligned_cols=122  Identities=15%  Similarity=0.178  Sum_probs=92.7

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC-----------------------cEEEEeccc---cCChHHHHHHHHhc----
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY-----------------------DVYDLELTT---VQDNSELRSLLIDT----  275 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~-----------------------~i~~l~~~~---~~~~~~l~~l~~~~----  275 (504)
                      +.+|||+||.|+||+++|.++|..+.+                       +++.+....   .-..+.+|.+....    
T Consensus        25 ~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~vdqiR~l~~~~~~~~  104 (319)
T PRK06090         25 PGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSITVEQIRQCNRLAQESS  104 (319)
T ss_pred             ceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCCHHHHHHHHHHHhhCc
Confidence            678999999999999999999987732                       355554321   12335566554332    


Q ss_pred             --cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEec
Q 037859          276 --SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTT  353 (504)
Q Consensus       276 --~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tT  353 (504)
                        ...-|++||++|.+                                   +....+.||..++.-    +++.++|++|
T Consensus       105 ~~~~~kV~iI~~ae~m-----------------------------------~~~AaNaLLKtLEEP----p~~t~fiL~t  145 (319)
T PRK06090        105 QLNGYRLFVIEPADAM-----------------------------------NESASNALLKTLEEP----APNCLFLLVT  145 (319)
T ss_pred             ccCCceEEEecchhhh-----------------------------------CHHHHHHHHHHhcCC----CCCeEEEEEE
Confidence              23579999999986                                   344678899999853    4568999999


Q ss_pred             CCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHH
Q 037859          354 NYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKN  389 (504)
Q Consensus       354 N~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~  389 (504)
                      +.++.|-|.+++  |+ ..+.|+.|+.++....+..
T Consensus       146 ~~~~~lLpTI~S--RC-q~~~~~~~~~~~~~~~L~~  178 (319)
T PRK06090        146 HNQKRLLPTIVS--RC-QQWVVTPPSTAQAMQWLKG  178 (319)
T ss_pred             CChhhChHHHHh--cc-eeEeCCCCCHHHHHHHHHH
Confidence            999999999999  98 6899999999888776654

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.90  E-value=1.9e-08  Score=102.01  Aligned_cols=122  Identities=15%  Similarity=0.222  Sum_probs=89.7

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC---------------------cEEEEe--cccc-------CChHHHHHHHHhc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY---------------------DVYDLE--LTTV-------QDNSELRSLLIDT  275 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~---------------------~i~~l~--~~~~-------~~~~~l~~l~~~~  275 (504)
                      +.+|||+||+|+||+++|.++|..+.+                     +++.+.  ...-       -.-+.+|.+....
T Consensus        26 ~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~~~I~idqIR~l~~~~  105 (319)
T PRK08769         26 GHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKL  105 (319)
T ss_pred             ceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccccccccHHHHHHHHHHH
Confidence            668999999999999999999987632                     233342  1100       1234555554433


Q ss_pred             c------CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEE
Q 037859          276 S------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERII  349 (504)
Q Consensus       276 ~------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~iv  349 (504)
                      .      ..-|++||++|.+                                   +....+.||..|+.-    ++..+|
T Consensus       106 ~~~p~~g~~kV~iI~~ae~m-----------------------------------~~~AaNaLLKtLEEP----p~~~~f  146 (319)
T PRK08769        106 ALTPQYGIAQVVIVDPADAI-----------------------------------NRAACNALLKTLEEP----SPGRYL  146 (319)
T ss_pred             hhCcccCCcEEEEeccHhhh-----------------------------------CHHHHHHHHHHhhCC----CCCCeE
Confidence            2      3469999999986                                   334678899988853    355789


Q ss_pred             EEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHH
Q 037859          350 VFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKN  389 (504)
Q Consensus       350 I~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~  389 (504)
                      |++|+.++.|.|.++.  |+ ..|.|+.|+.++....+..
T Consensus       147 iL~~~~~~~lLpTIrS--RC-q~i~~~~~~~~~~~~~L~~  183 (319)
T PRK08769        147 WLISAQPARLPATIRS--RC-QRLEFKLPPAHEALAWLLA  183 (319)
T ss_pred             EEEECChhhCchHHHh--hh-eEeeCCCcCHHHHHHHHHH
Confidence            9999999999999999  98 6899999999887766654

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.89  E-value=1.5e-08  Score=103.69  Aligned_cols=122  Identities=15%  Similarity=0.169  Sum_probs=92.9

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC------------------------cEEEEeccc---cCChHHHHHHHHhc---
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DVYDLELTT---VQDNSELRSLLIDT---  275 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i~~l~~~~---~~~~~~l~~l~~~~---  275 (504)
                      +.+|||+||+|+||+++|.++|..+-+                        +++.+....   .-.-+++|.+....   
T Consensus        24 ~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~  103 (334)
T PRK07993         24 HHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEKLYEH  103 (334)
T ss_pred             ceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHHHHHHHHhhc
Confidence            678999999999999999999998732                        344443221   12345666655443   


Q ss_pred             ---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEe
Q 037859          276 ---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFT  352 (504)
Q Consensus       276 ---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~t  352 (504)
                         ...-|++||++|.+                                   +....+.||..|+.-    ++..++|++
T Consensus       104 ~~~g~~kV~iI~~ae~m-----------------------------------~~~AaNaLLKtLEEP----p~~t~fiL~  144 (334)
T PRK07993        104 ARLGGAKVVWLPDAALL-----------------------------------TDAAANALLKTLEEP----PENTWFFLA  144 (334)
T ss_pred             cccCCceEEEEcchHhh-----------------------------------CHHHHHHHHHHhcCC----CCCeEEEEE
Confidence               24579999999986                                   334678899999853    466899999


Q ss_pred             cCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHH
Q 037859          353 TNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKN  389 (504)
Q Consensus       353 TN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~  389 (504)
                      |++++.|.|.+++  |+ ..+.|+.|+.++....+..
T Consensus       145 t~~~~~lLpTIrS--RC-q~~~~~~~~~~~~~~~L~~  178 (334)
T PRK07993        145 CREPARLLATLRS--RC-RLHYLAPPPEQYALTWLSR  178 (334)
T ss_pred             ECChhhChHHHHh--cc-ccccCCCCCHHHHHHHHHH
Confidence            9999999999999  88 4789999999888776654

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.85  E-value=1.5e-08  Score=103.46  Aligned_cols=122  Identities=15%  Similarity=0.264  Sum_probs=89.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC-------------------------cEEEEeccc----------cCChHHHHH
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY-------------------------DVYDLELTT----------VQDNSELRS  270 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~-------------------------~i~~l~~~~----------~~~~~~l~~  270 (504)
                      +.+|||+||+|+|||++|+++|+.+.+                         +++.++...          .-.-+.+|.
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~iR~  100 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAVRE  100 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHHHH
Confidence            678999999999999999999998732                         355555421          013455666


Q ss_pred             HHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCC
Q 037859          271 LLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG  344 (504)
Q Consensus       271 l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~  344 (504)
                      +....      ...-|++||++|.+                                   +....+.||..|+...    
T Consensus       101 l~~~~~~~p~~~~~kV~iiEp~~~L-----------------------------------d~~a~naLLk~LEep~----  141 (325)
T PRK08699        101 IIDNVYLTSVRGGLRVILIHPAESM-----------------------------------NLQAANSLLKVLEEPP----  141 (325)
T ss_pred             HHHHHhhCcccCCceEEEEechhhC-----------------------------------CHHHHHHHHHHHHhCc----
Confidence            65443      24568999999986                                   2235567777776542    


Q ss_pred             CceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHH
Q 037859          345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKN  389 (504)
Q Consensus       345 ~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~  389 (504)
                      .+..+|++|++++.+.|.+.+  |+ .++.|+.|+.++....+..
T Consensus       142 ~~~~~Ilvth~~~~ll~ti~S--Rc-~~~~~~~~~~~~~~~~L~~  183 (325)
T PRK08699        142 PQVVFLLVSHAADKVLPTIKS--RC-RKMVLPAPSHEEALAYLRE  183 (325)
T ss_pred             CCCEEEEEeCChHhChHHHHH--Hh-hhhcCCCCCHHHHHHHHHh
Confidence            336788899999999999999  88 6899999999887766654

>TIGR00368 Mg chelatase-related protein

Probab=98.84  E-value=3.2e-08  Score=106.30  Aligned_cols=142  Identities=17%  Similarity=0.218  Sum_probs=90.0

Q ss_pred             CccccccccChhHHHHHHHhhc--ccccccCCCCCcHHHHHHHHHHhcCCc--EEEEecccc------------------
Q 037859          205 PATFDTLAMETKKKEEIKKDLK--KGYLLYGPPGTGKSTMIAAMANFLNYD--VYDLELTTV------------------  262 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l~--rg~LL~GPpGtGKTsla~aiA~~l~~~--i~~l~~~~~------------------  262 (504)
                      +..|+.+.++...++.+.-.+.  ..++|+||||||||++++++++.+.-.  -..++...+                  
T Consensus       188 ~~d~~dv~Gq~~~~~al~~aa~~g~~vlliG~pGsGKTtlar~l~~llp~~~~~~~le~~~i~s~~g~~~~~~~~~~~Pf  267 (499)
T TIGR00368       188 DLDLKDIKGQQHAKRALEIAAAGGHNLLLFGPPGSGKTMLASRLQGILPPLTNEEAIETARIWSLVGKLIDRKQIKQRPF  267 (499)
T ss_pred             CCCHHHhcCcHHHHhhhhhhccCCCEEEEEecCCCCHHHHHHHHhcccCCCCCcEEEeccccccchhhhccccccccCCc
Confidence            3478999999888877776663  449999999999999999999754110  001111111                  


Q ss_pred             -------------CChHHHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHH
Q 037859          263 -------------QDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTL  329 (504)
Q Consensus       263 -------------~~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  329 (504)
                                   ++....+.-......+.+|||||++.+                                   +...+
T Consensus       268 ~~p~~s~s~~~~~ggg~~~~pG~i~lA~~GvLfLDEi~e~-----------------------------------~~~~~  312 (499)
T TIGR00368       268 RSPHHSASKPALVGGGPIPLPGEISLAHNGVLFLDELPEF-----------------------------------KRSVL  312 (499)
T ss_pred             cccccccchhhhhCCccccchhhhhccCCCeEecCChhhC-----------------------------------CHHHH
Confidence                         000001111122346789999999975                                   12345


Q ss_pred             HHHhhhhcCcc---------ccCCCceEEEEecCCC------C-----------------CCChhhhcCCCceeEEEecC
Q 037859          330 SGLLNFIDGLW---------SASGEERIIVFTTNYV------D-----------------KLDPALIRRGRMDKHIEMSY  377 (504)
Q Consensus       330 s~lL~~lDg~~---------~~~~~~~ivI~tTN~~------e-----------------~Ld~ALlRpGR~d~~I~~~~  377 (504)
                      ..|+..|+.-.         ........+|+|||.-      +                 +|..+|+.  |||.++.++.
T Consensus       313 ~~L~~~LE~~~v~i~r~g~~~~~pa~frlIaa~Npcpcg~~~~~~~~c~c~~~~~~~y~~~is~pllD--R~dl~~~~~~  390 (499)
T TIGR00368       313 DALREPIEDGSISISRASAKIFYPARFQLVAAMNPCPCGHYGGKNTHCRCSPQQISRYWNKLSGPFLD--RIDLSVEVPL  390 (499)
T ss_pred             HHHHHHHHcCcEEEEecCcceeccCCeEEEEecCCcccCcCCCCcccccCCHHHHHHHhhhccHhHHh--hCCEEEEEcC
Confidence            55665553211         0112346788999852      1                 58999999  9999999998


Q ss_pred             CCHHHH
Q 037859          378 CCFEAF  383 (504)
Q Consensus       378 p~~e~~  383 (504)
                      ++.++.
T Consensus       391 ~~~~~l  396 (499)
T TIGR00368       391 LPPEKL  396 (499)
T ss_pred             CCHHHH
Confidence            876543

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.81  E-value=9.6e-09  Score=103.91  Aligned_cols=63  Identities=29%  Similarity=0.444  Sum_probs=48.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC-------ChHHHHHHHHhccCCeEEEEecccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ-------DNSELRSLLIDTSSKSILVIEDIDC  288 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~-------~~~~l~~l~~~~~~~~Il~iDeiD~  288 (504)
                      .+|++||||||||||.|+.|||+++   |+.+..+.+..+.       ....+...+.......+|+||||..
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~lk~~~~~~~~~~~l~~l~~~dlLiIDDiG~  228 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAVKEAPVLMLDDIGA  228 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHhcCcHHHHHHHhcCCCEEEEecCCC
Confidence            3589999999999999999999998   6777777665431       1122445555567889999999976

>PRK09183 transposase/IS protein; Provisional

Probab=98.80  E-value=5.8e-09  Score=103.22  Aligned_cols=64  Identities=19%  Similarity=0.301  Sum_probs=45.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCC-------hHHHHHHHHh-ccCCeEEEEeccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQD-------NSELRSLLID-TSSKSILVIEDIDCS  289 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~-------~~~l~~l~~~-~~~~~Il~iDeiD~~  289 (504)
                      ..+++|+||||||||+|+.+++..+   |+.+.+++...+..       ...+...+.. ...+.+++|||++..
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~~~~~dlLiiDdlg~~  176 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRGVMAPRLLIIDEIGYL  176 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHHhcCCCEEEEcccccC
Confidence            4568999999999999999997664   67777776554320       0123344443 456789999999863

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

Probab=98.80  E-value=3e-08  Score=103.28  Aligned_cols=134  Identities=21%  Similarity=0.334  Sum_probs=92.7

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEecc-cc---CC---hHHHHHHHHhcc--CCeEEEEeccccccccccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELT-TV---QD---NSELRSLLIDTS--SKSILVIEDIDCSLDLTGQRE  297 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~-~~---~~---~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~  297 (504)
                      ..+||+||||+|||+||.-+|...++|++.+-.. .+   ..   ...+.+.|..+-  .-+||++|||+.+++...   
T Consensus       539 vSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdiErLiD~vp---  615 (744)
T KOG0741|consen  539 VSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDIERLLDYVP---  615 (744)
T ss_pred             eEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcchhhhhcccc---
Confidence            4489999999999999999999999999876332 22   11   134678888773  469999999999886432   


Q ss_pred             ccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEE-EecCCCCCCCh-hhhcCCCceeEEEe
Q 037859          298 KKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIV-FTTNYVDKLDP-ALIRRGRMDKHIEM  375 (504)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI-~tTN~~e~Ld~-ALlRpGR~d~~I~~  375 (504)
                                            -+...+..++..|+..+....  ..+.+++| +||...+-|.. .++.  .|+-.|++
T Consensus       616 ----------------------IGPRfSN~vlQaL~VllK~~p--pkg~kLli~~TTS~~~vL~~m~i~~--~F~~~i~V  669 (744)
T KOG0741|consen  616 ----------------------IGPRFSNLVLQALLVLLKKQP--PKGRKLLIFGTTSRREVLQEMGILD--CFSSTIHV  669 (744)
T ss_pred             ----------------------cCchhhHHHHHHHHHHhccCC--CCCceEEEEecccHHHHHHHcCHHH--hhhheeec
Confidence                                  234456778888888887653  23345555 56655544432 4455  78888999


Q ss_pred             cCCCH-HHHHHHHHH
Q 037859          376 SYCCF-EAFKVLAKN  389 (504)
Q Consensus       376 ~~p~~-e~~~~i~~~  389 (504)
                      |..+. ++...++..
T Consensus       670 pnl~~~~~~~~vl~~  684 (744)
T KOG0741|consen  670 PNLTTGEQLLEVLEE  684 (744)
T ss_pred             CccCchHHHHHHHHH
Confidence            88755 566555554

>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=98.80  E-value=4e-08  Score=99.54  Aligned_cols=55  Identities=27%  Similarity=0.413  Sum_probs=40.3

Q ss_pred             ccccccChhHHHHHHH---hh------cccccccCCCCCcHHHHHHHHHHhcC--CcEEEEecccc
Q 037859          208 FDTLAMETKKKEEIKK---DL------KKGYLLYGPPGTGKSTMIAAMANFLN--YDVYDLELTTV  262 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~---~l------~rg~LL~GPpGtGKTsla~aiA~~l~--~~i~~l~~~~~  262 (504)
                      .+.++++.+.+++.--   .+      .|++||.||||||||.||-+||.+||  .|++.++.+.+
T Consensus        23 ~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEi   88 (398)
T PF06068_consen   23 ADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEI   88 (398)
T ss_dssp             ETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG
T ss_pred             cccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEccccee
Confidence            4578888888765332   22      78999999999999999999999997  67777777665

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.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=98.79  E-value=5.2e-08  Score=99.74  Aligned_cols=147  Identities=18%  Similarity=0.227  Sum_probs=96.6

Q ss_pred             ccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHH-HHH----
Q 037859          208 FDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRS-LLI----  273 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~-l~~----  273 (504)
                      |+.+++.....+.+++.+      ...+||+|++||||+++|++|-...   +.+++.++|..+.. ..+.. +|.    
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~-~~~~~~lfg~~~~   83 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNE-NLLDSELFGHEAG   83 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCH-HHHHHHHcccccc
Confidence            556677776667777666      5669999999999999999997654   46899999998753 33332 221    


Q ss_pred             -------------hccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          274 -------------DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       274 -------------~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                                   .......|||||||.+                                   +......|++.++.-.
T Consensus        84 ~~~g~~~~~~g~l~~a~gGtL~l~~i~~L-----------------------------------~~~~Q~~L~~~l~~~~  128 (326)
T PRK11608         84 AFTGAQKRHPGRFERADGGTLFLDELATA-----------------------------------PMLVQEKLLRVIEYGE  128 (326)
T ss_pred             ccCCcccccCCchhccCCCeEEeCChhhC-----------------------------------CHHHHHHHHHHHhcCc
Confidence                         2234678999999986                                   1234555666664311


Q ss_pred             -ccCC------CceEEEEecCCC-------CCCChhhhcCCCc-eeEEEecCCC--HHHHHHHHHHhcC
Q 037859          341 -SASG------EERIIVFTTNYV-------DKLDPALIRRGRM-DKHIEMSYCC--FEAFKVLAKNYLD  392 (504)
Q Consensus       341 -~~~~------~~~ivI~tTN~~-------e~Ld~ALlRpGR~-d~~I~~~~p~--~e~~~~i~~~~l~  392 (504)
                       ...+      ..+.||+||+..       ..+.+.|..  || ...|.+|...  .++...|+..|+.
T Consensus       129 ~~~~g~~~~~~~~~RiI~~s~~~l~~l~~~g~f~~dL~~--~l~~~~i~lPpLReR~eDI~~L~~~fl~  195 (326)
T PRK11608        129 LERVGGSQPLQVNVRLVCATNADLPAMVAEGKFRADLLD--RLAFDVVQLPPLRERQSDIMLMAEHFAI  195 (326)
T ss_pred             EEeCCCCceeeccEEEEEeCchhHHHHHHcCCchHHHHH--hcCCCEEECCChhhhhhhHHHHHHHHHH
Confidence             1101      235677777653       356688888  88 4566776653  3566677777763

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

Probab=98.79  E-value=2.4e-08  Score=94.47  Aligned_cols=140  Identities=18%  Similarity=0.270  Sum_probs=91.7

Q ss_pred             ecCCCccccccccChhHHHHHHHhhcc----cccccCCCCCcHHHHHHHHHHhc-C--C--cEEEEeccccCChHHHH--
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDLKK----GYLLYGPPGTGKSTMIAAMANFL-N--Y--DVYDLELTTVQDNSELR--  269 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l~r----g~LL~GPpGtGKTsla~aiA~~l-~--~--~i~~l~~~~~~~~~~l~--  269 (504)
                      .-.+|..+.++++.++..+++--..+.    .+++.||||||||+-+.++|++| |  +  .+..++.++-.+-+-+|  
T Consensus        19 eKYrP~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~   98 (333)
T KOG0991|consen   19 EKYRPSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNK   98 (333)
T ss_pred             HhhCchHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHH
Confidence            345688899999999887776655533    38999999999999999999987 3  2  25566666544444444  


Q ss_pred             -HHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc
Q 037859          270 -SLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA  342 (504)
Q Consensus       270 -~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~  342 (504)
                       +.|.+.      .+.-||++||+|++-.                                ..   ...|-..|+=..+ 
T Consensus        99 IK~FAQ~kv~lp~grhKIiILDEADSMT~--------------------------------gA---QQAlRRtMEiyS~-  142 (333)
T KOG0991|consen   99 IKMFAQKKVTLPPGRHKIIILDEADSMTA--------------------------------GA---QQALRRTMEIYSN-  142 (333)
T ss_pred             HHHHHHhhccCCCCceeEEEeeccchhhh--------------------------------HH---HHHHHHHHHHHcc-
Confidence             334433      1346999999998621                                11   1222333332222 


Q ss_pred             CCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHH
Q 037859          343 SGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEA  382 (504)
Q Consensus       343 ~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~  382 (504)
                         ..-+.+++|..+++=+.+..  |+ -.+.++..+.++
T Consensus       143 ---ttRFalaCN~s~KIiEPIQS--RC-AiLRysklsd~q  176 (333)
T KOG0991|consen  143 ---TTRFALACNQSEKIIEPIQS--RC-AILRYSKLSDQQ  176 (333)
T ss_pred             ---cchhhhhhcchhhhhhhHHh--hh-HhhhhcccCHHH
Confidence               23478899999998888888  76 345666655544

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=98.77  E-value=1.8e-07  Score=93.51  Aligned_cols=54  Identities=30%  Similarity=0.505  Sum_probs=39.8

Q ss_pred             cccccChhHHHH---HHHhh------cccccccCCCCCcHHHHHHHHHHhcC--CcEEEEecccc
Q 037859          209 DTLAMETKKKEE---IKKDL------KKGYLLYGPPGTGKSTMIAAMANFLN--YDVYDLELTTV  262 (504)
Q Consensus       209 ~~~~~~~~~k~~---i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l~--~~i~~l~~~~~  262 (504)
                      +.++++.+.+++   |++.+      .||+|+.||||||||.||-+||.+||  .|+..++.+.+
T Consensus        39 dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~isgsEi  103 (450)
T COG1224          39 DGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEI  103 (450)
T ss_pred             CcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCceeecccee
Confidence            456677666653   22333      78999999999999999999999997  45566655554

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.77  E-value=2.1e-08  Score=98.78  Aligned_cols=65  Identities=32%  Similarity=0.466  Sum_probs=53.9

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC-------Ch-HHHHHHHHhc------cCCeEEEEecccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-------DN-SELRSLLIDT------SSKSILVIEDIDCSL  290 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~-------~~-~~l~~l~~~~------~~~~Il~iDeiD~~~  290 (504)
                      +..+||.||.|||||.||+.+|+.++.|+-.-|++.+.       +- .-|.+++..+      .++.||+|||||.+.
T Consensus        97 KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEAGYVGEDVENillkLlqaadydV~rAerGIIyIDEIDKIa  175 (408)
T COG1219          97 KSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVERAERGIIYIDEIDKIA  175 (408)
T ss_pred             eccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhccccchhHHHHHHHHHHHcccCHHHHhCCeEEEechhhhh
Confidence            57899999999999999999999999999998888763       11 2355666654      478999999999973

>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=98.77  E-value=3.6e-08  Score=91.15  Aligned_cols=75  Identities=16%  Similarity=0.228  Sum_probs=53.0

Q ss_pred             hhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHHHHhc----------
Q 037859          215 TKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSLLIDT----------  275 (504)
Q Consensus       215 ~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~~~~----------  275 (504)
                      ....+++++.+      +..+||+|++||||+.+|++|-+..   +.|++.++|+.+..+.--..+|...          
T Consensus         5 s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~LFG~~~~~~~~~~~~   84 (168)
T PF00158_consen    5 SPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESELFGHEKGAFTGARSD   84 (168)
T ss_dssp             SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHHHHEBCSSSSTTTSSE
T ss_pred             CHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhhhhccccccccccccc
Confidence            33444444444      6779999999999999999998865   4689999999885433233455321          


Q ss_pred             -------cCCeEEEEeccccc
Q 037859          276 -------SSKSILVIEDIDCS  289 (504)
Q Consensus       276 -------~~~~Il~iDeiD~~  289 (504)
                             .....|||||||.+
T Consensus        85 ~~G~l~~A~~GtL~Ld~I~~L  105 (168)
T PF00158_consen   85 KKGLLEQANGGTLFLDEIEDL  105 (168)
T ss_dssp             BEHHHHHTTTSEEEEETGGGS
T ss_pred             cCCceeeccceEEeecchhhh
Confidence                   35679999999986

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 ....

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.75  E-value=5.4e-08  Score=99.64  Aligned_cols=129  Identities=19%  Similarity=0.247  Sum_probs=84.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHH-HHH-----------------hccCCeEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRS-LLI-----------------DTSSKSILVIE  284 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~-l~~-----------------~~~~~~Il~iD  284 (504)
                      ...+||+|++||||+++|++|-...   +.+++.++|..+.. ..+.. +|.                 +......||||
T Consensus        22 ~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~-~~l~~~lfG~~~g~~~ga~~~~~G~~~~a~gGtL~Ld  100 (329)
T TIGR02974        22 DRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSE-NLLDSELFGHEAGAFTGAQKRHQGRFERADGGTLFLD  100 (329)
T ss_pred             CCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCCh-HHHHHHHhccccccccCcccccCCchhhCCCCEEEeC
Confidence            5669999999999999999997654   46899999998753 22322 221                 22356899999


Q ss_pred             cccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc-c------cCCCceEEEEecCCC-
Q 037859          285 DIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW-S------ASGEERIIVFTTNYV-  356 (504)
Q Consensus       285 eiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~-~------~~~~~~ivI~tTN~~-  356 (504)
                      |||.+                                   +......|+..|+.-. .      ....++.+|+|||.. 
T Consensus       101 ei~~L-----------------------------------~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~~l  145 (329)
T TIGR02974       101 ELATA-----------------------------------SLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADL  145 (329)
T ss_pred             ChHhC-----------------------------------CHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechhhH
Confidence            99986                                   1234555666664211 0      111235678888743 


Q ss_pred             ------CCCChhhhcCCCce-eEEEecCCC--HHHHHHHHHHhcC
Q 037859          357 ------DKLDPALIRRGRMD-KHIEMSYCC--FEAFKVLAKNYLD  392 (504)
Q Consensus       357 ------e~Ld~ALlRpGR~d-~~I~~~~p~--~e~~~~i~~~~l~  392 (504)
                            ..+.+.|..  |+. ..|.+|...  .++...|++.|+.
T Consensus       146 ~~~~~~g~fr~dL~~--rl~~~~i~lPpLReR~eDI~~L~~~fl~  188 (329)
T TIGR02974       146 PALAAEGRFRADLLD--RLAFDVITLPPLRERQEDIMLLAEHFAI  188 (329)
T ss_pred             HHHhhcCchHHHHHH--HhcchhcCCCchhhhhhhHHHHHHHHHH
Confidence                  345677887  773 456666553  4566677777763

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

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

Probab=98.74  E-value=4.5e-09  Score=98.15  Aligned_cols=63  Identities=29%  Similarity=0.574  Sum_probs=45.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecccc-------CChHHHHHHHHhccCCeEEEEecccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTV-------QDNSELRSLLIDTSSKSILVIEDIDC  288 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~-------~~~~~l~~l~~~~~~~~Il~iDeiD~  288 (504)
                      +.|++|+||||||||.||.|+|+++   |+.+++++...+       .......+.+.......+|+|||+-.
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~~~dlLilDDlG~  119 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLKRVDLLILDDLGY  119 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHHTSSCEEEETCTS
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCccccccEecccccce
Confidence            6889999999999999999999876   788888877654       11222344555556778999999954

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.

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=98.74  E-value=5.4e-08  Score=99.86  Aligned_cols=151  Identities=19%  Similarity=0.269  Sum_probs=101.6

Q ss_pred             ccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhcCCcEE--------------------------
Q 037859          206 ATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLNYDVY--------------------------  255 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~~~i~--------------------------  255 (504)
                      -+|..+++++..|..++-..    -.|+|+-|+.|||||++++|||..|.--..                          
T Consensus        14 ~pf~aivGqd~lk~aL~l~av~P~iggvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~cdP~~P~~~c~~c~~k~~e   93 (423)
T COG1239          14 LPFTAIVGQDPLKLALGLNAVDPQIGGALIAGEKGTAKSTLARALADLLPEIEVVIGCPFNCDPDDPEEMCDECRAKGDE   93 (423)
T ss_pred             cchhhhcCchHHHHHHhhhhcccccceeEEecCCCccHHHHHHHHHHhCCccceecCCCCCCCCCChhhhhHHHHhhccc
Confidence            34677788888887776555    467999999999999999999998731110                          


Q ss_pred             ------------EEeccccCChH------HHHHHHHh-----------ccCCeEEEEecccccccccccccccccccccc
Q 037859          256 ------------DLELTTVQDNS------ELRSLLID-----------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDK  306 (504)
Q Consensus       256 ------------~l~~~~~~~~~------~l~~l~~~-----------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~  306 (504)
                                  .+++....+..      ++.+.+..           ..++.|++|||+..+-                
T Consensus        94 ~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~----------------  157 (423)
T COG1239          94 LEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLD----------------  157 (423)
T ss_pred             cccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEecccccc----------------
Confidence                        11111111111      12233321           1367899999998752                


Q ss_pred             cccCcccccccccCCCcchhhHHHHHhhhh---------cCccccCCCceEEEEecCCCC-CCChhhhcCCCceeEEEec
Q 037859          307 EEKNPIEKKEKEDGGSKKSKVTLSGLLNFI---------DGLWSASGEERIIVFTTNYVD-KLDPALIRRGRMDKHIEMS  376 (504)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~~~~ls~lL~~l---------Dg~~~~~~~~~ivI~tTN~~e-~Ld~ALlRpGR~d~~I~~~  376 (504)
                                         ...+..||+.+         +|+.-...-..++|+|+|..+ .|-|-|+.  ||..+|.+.
T Consensus       158 -------------------d~lvd~LLd~aaeG~n~vereGisi~hpa~fvligTmNPEeGeLrpqLlD--Rfg~~v~~~  216 (423)
T COG1239         158 -------------------DHLVDALLDVAAEGVNDVEREGISIRHPARFLLIGTMNPEEGELRPQLLD--RFGLEVDTH  216 (423)
T ss_pred             -------------------HHHHHHHHHHHHhCCceeeeCceeeccCccEEEEeecCccccccchhhHh--hhcceeecc
Confidence                               23556666654         444333445578999999775 68899999  999999999


Q ss_pred             CC-CHHHHHHHHHHhcCc
Q 037859          377 YC-CFEAFKVLAKNYLDI  393 (504)
Q Consensus       377 ~p-~~e~~~~i~~~~l~~  393 (504)
                      +| +.+++..|.++-+..
T Consensus       217 ~~~~~~~rv~Ii~r~~~f  234 (423)
T COG1239         217 YPLDLEERVEIIRRRLAF  234 (423)
T ss_pred             CCCCHHHHHHHHHHHHHh
Confidence            88 567788887765543

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.74  E-value=8.2e-08  Score=104.89  Aligned_cols=169  Identities=18%  Similarity=0.185  Sum_probs=107.5

Q ss_pred             ccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHH-HHH--
Q 037859          206 ATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRS-LLI--  273 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~-l~~--  273 (504)
                      ..|+.+++.....+++++.+      ...+||+|++||||+++|++|....   +.+++.++|..+.. ..+.. +|.  
T Consensus       193 ~~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~-~~~~~~lfg~~  271 (534)
T TIGR01817       193 GKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSE-TLLESELFGHE  271 (534)
T ss_pred             CccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCH-HHHHHHHcCCC
Confidence            46788888888888888777      4569999999999999999998875   56899999998843 23332 222  


Q ss_pred             ---------------hccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          274 ---------------DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       274 ---------------~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                                     .......|||||||.+                                   +......|+..++.
T Consensus       272 ~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L-----------------------------------~~~~Q~~Ll~~l~~  316 (534)
T TIGR01817       272 KGAFTGAIAQRKGRFELADGGTLFLDEIGEI-----------------------------------SPAFQAKLLRVLQE  316 (534)
T ss_pred             CCccCCCCcCCCCcccccCCCeEEEechhhC-----------------------------------CHHHHHHHHHHHhc
Confidence                           1234679999999986                                   12345566666643


Q ss_pred             cc-ccCC------CceEEEEecCCC-------CCCChhhhcCCCce-eEEEecCCC--HHHHHHHHHHhcCcCCcchHHH
Q 037859          339 LW-SASG------EERIIVFTTNYV-------DKLDPALIRRGRMD-KHIEMSYCC--FEAFKVLAKNYLDIDSHELYAV  401 (504)
Q Consensus       339 ~~-~~~~------~~~ivI~tTN~~-------e~Ld~ALlRpGR~d-~~I~~~~p~--~e~~~~i~~~~l~~~~~~~~~~  401 (504)
                      -. ...+      ..+.+|+|||..       ..+.+.|..  |+. ..|.+|...  .++...|++.|+...    ...
T Consensus       317 ~~~~~~~~~~~~~~~~riI~~s~~~l~~~~~~~~f~~~L~~--rl~~~~i~lPpLreR~eDi~~L~~~~l~~~----~~~  390 (534)
T TIGR01817       317 GEFERVGGNRTLKVDVRLVAATNRDLEEAVAKGEFRADLYY--RINVVPIFLPPLRERREDIPLLAEAFLEKF----NRE  390 (534)
T ss_pred             CcEEECCCCceEeecEEEEEeCCCCHHHHHHcCCCCHHHHH--HhcCCeeeCCCcccccccHHHHHHHHHHHH----HHH
Confidence            21 1111      135677777643       234455555  553 456676654  466777888887421    111


Q ss_pred             HhcCccCCCCCHHHHHHh
Q 037859          402 IESMPAETNMTPADVAEN  419 (504)
Q Consensus       402 i~~l~~~~~~s~a~i~~~  419 (504)
                         .-...+++++-+..+
T Consensus       391 ---~~~~~~~s~~a~~~L  405 (534)
T TIGR01817       391 ---NGRPLTITPSAIRVL  405 (534)
T ss_pred             ---cCCCCCCCHHHHHHH
Confidence               111256888766543

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.

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.73  E-value=2.3e-08  Score=107.01  Aligned_cols=139  Identities=20%  Similarity=0.292  Sum_probs=88.2

Q ss_pred             cccccccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcCCcE--EEEeccccC-------------------
Q 037859          207 TFDTLAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLNYDV--YDLELTTVQ-------------------  263 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~~~i--~~l~~~~~~-------------------  263 (504)
                      .|..+.++...++.+.-.+  ...++|+||||||||++++.+++.+.-.-  ..++.+.+.                   
T Consensus       189 d~~~v~Gq~~~~~al~laa~~G~~llliG~~GsGKTtLak~L~gllpp~~g~e~le~~~i~s~~g~~~~~~~~~~rPfr~  268 (506)
T PRK09862        189 DLSDVIGQEQGKRGLEITAAGGHNLLLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLVNAESVQKQWRQRPFRS  268 (506)
T ss_pred             CeEEEECcHHHHhhhheeccCCcEEEEECCCCCcHHHHHHHHhccCCCCCCcEEEecchhhhhhccccccCCcCCCCccC
Confidence            5666667666666654444  44499999999999999999998663110  011111110                   


Q ss_pred             --ChHHHHHHH----------HhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHH
Q 037859          264 --DNSELRSLL----------IDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSG  331 (504)
Q Consensus       264 --~~~~l~~l~----------~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~  331 (504)
                        .......++          .......++||||++.+                                   ...++..
T Consensus       269 ph~~~s~~~l~GGg~~~~pG~l~~A~gGvLfLDEi~e~-----------------------------------~~~~~~~  313 (506)
T PRK09862        269 PHHSASLTAMVGGGAIPGPGEISLAHNGVLFLDELPEF-----------------------------------ERRTLDA  313 (506)
T ss_pred             CCccchHHHHhCCCceehhhHhhhccCCEEecCCchhC-----------------------------------CHHHHHH
Confidence              000111222          23346789999999874                                   2346677


Q ss_pred             Hhhhhc-Ccc--cc------CCCceEEEEecCCCC---------------------CCChhhhcCCCceeEEEecCCCHH
Q 037859          332 LLNFID-GLW--SA------SGEERIIVFTTNYVD---------------------KLDPALIRRGRMDKHIEMSYCCFE  381 (504)
Q Consensus       332 lL~~lD-g~~--~~------~~~~~ivI~tTN~~e---------------------~Ld~ALlRpGR~d~~I~~~~p~~e  381 (504)
                      |++.|+ |..  +.      ......+|+|+|...                     +|..+++.  |||+++.+++++.+
T Consensus       314 L~~~LE~g~v~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLD--RfdL~v~v~~~~~~  391 (506)
T PRK09862        314 LREPIESGQIHLSRTRAKITYPARFQLVAAMNPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLD--RFDLSLEIPLPPPG  391 (506)
T ss_pred             HHHHHHcCcEEEecCCcceeccCCEEEEEeecCccceecCCCCCCcCHHHHHHHHhhCCHhHHh--hccEEEEeCCCCHH
Confidence            777663 221  01      123468899999753                     57889999  99999999999876


Q ss_pred             H
Q 037859          382 A  382 (504)
Q Consensus       382 ~  382 (504)
                      .
T Consensus       392 ~  392 (506)
T PRK09862        392 I  392 (506)
T ss_pred             H
Confidence            3

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.68  E-value=1.5e-07  Score=104.93  Aligned_cols=83  Identities=18%  Similarity=0.200  Sum_probs=62.0

Q ss_pred             cccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHHHHh---
Q 037859          207 TFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSLLID---  274 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~~~---  274 (504)
                      +|+.+++.....+++++.+      ...+||+|++||||+++|++|.+..   +.+++.+||..+....-...+|..   
T Consensus       323 ~~~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~~~~~elfg~~~~  402 (638)
T PRK11388        323 TFDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEALAEEFLGSDRT  402 (638)
T ss_pred             cccceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChHHHHHHhcCCCCc
Confidence            5777777776666666666      4569999999999999999998765   468999999988642222334431   


Q ss_pred             -----------ccCCeEEEEeccccc
Q 037859          275 -----------TSSKSILVIEDIDCS  289 (504)
Q Consensus       275 -----------~~~~~Il~iDeiD~~  289 (504)
                                 ......|||||||.+
T Consensus       403 ~~~~~~~g~~~~a~~GtL~ldei~~l  428 (638)
T PRK11388        403 DSENGRLSKFELAHGGTLFLEKVEYL  428 (638)
T ss_pred             CccCCCCCceeECCCCEEEEcChhhC
Confidence                       235678999999986

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

Probab=98.68  E-value=1.9e-07  Score=96.87  Aligned_cols=181  Identities=18%  Similarity=0.243  Sum_probs=99.1

Q ss_pred             cCCCccccccccChhHHH--HHHHhh-------cccccccCCCCCcHHHHHHHHHHhcC-----CcEEEEeccccCCh--
Q 037859          202 FEHPATFDTLAMETKKKE--EIKKDL-------KKGYLLYGPPGTGKSTMIAAMANFLN-----YDVYDLELTTVQDN--  265 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~--~i~~~l-------~rg~LL~GPpGtGKTsla~aiA~~l~-----~~i~~l~~~~~~~~--  265 (504)
                      +...-+|++++..+.-..  .+...+       -..++||||+|.|||.|++|++++..     ..++++........  
T Consensus        80 l~~~ytFdnFv~g~~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v  159 (408)
T COG0593          80 LNPKYTFDNFVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFV  159 (408)
T ss_pred             CCCCCchhheeeCCchHHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHH
Confidence            334456888776654322  111222       23478999999999999999998873     23444433222100  


Q ss_pred             HHHH----HHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          266 SELR----SLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       266 ~~l~----~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                      ..++    .-|.+.-+--+++||||+.+.   |+.                           ..+..+-.+.|.+   ..
T Consensus       160 ~a~~~~~~~~Fk~~y~~dlllIDDiq~l~---gk~---------------------------~~qeefFh~FN~l---~~  206 (408)
T COG0593         160 KALRDNEMEKFKEKYSLDLLLIDDIQFLA---GKE---------------------------RTQEEFFHTFNAL---LE  206 (408)
T ss_pred             HHHHhhhHHHHHHhhccCeeeechHhHhc---CCh---------------------------hHHHHHHHHHHHH---Hh
Confidence            0000    111111234589999999862   211                           1122333333333   21


Q ss_pred             cCCCceEEEEecC-CCC---CCChhhhcCCCce--eEEEecCCCHHHHHHHHHHhcCcCCcchHHH-HhcCccCCCCCHH
Q 037859          342 ASGEERIIVFTTN-YVD---KLDPALIRRGRMD--KHIEMSYCCFEAFKVLAKNYLDIDSHELYAV-IESMPAETNMTPA  414 (504)
Q Consensus       342 ~~~~~~ivI~tTN-~~e---~Ld~ALlRpGR~d--~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~-i~~l~~~~~~s~a  414 (504)
                        .++ .||+|+. .|.   .+.|.|.+  ||.  ..+.+..|+.+.+..|++...........++ +.-++....-+.+
T Consensus       207 --~~k-qIvltsdr~P~~l~~~~~rL~S--R~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~~i~~ev~~~la~~~~~nvR  281 (408)
T COG0593         207 --NGK-QIVLTSDRPPKELNGLEDRLRS--RLEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLAKRLDRNVR  281 (408)
T ss_pred             --cCC-EEEEEcCCCchhhccccHHHHH--HHhceeEEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccHH
Confidence              122 4555554 443   35699999  875  6778899999999999998654443333333 2333333344445


Q ss_pred             HHHHhh
Q 037859          415 DVAENL  420 (504)
Q Consensus       415 ~i~~~l  420 (504)
                      ++.+.+
T Consensus       282 eLegaL  287 (408)
T COG0593         282 ELEGAL  287 (408)
T ss_pred             HHHHHH
Confidence            554443

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.66  E-value=1.7e-07  Score=100.97  Aligned_cols=61  Identities=38%  Similarity=0.577  Sum_probs=49.6

Q ss_pred             ccceeeecCCCccccccccChhHHHHHHHhh---------cccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          195 TKWSHVFFEHPATFDTLAMETKKKEEIKKDL---------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       195 ~~w~~~~~~~p~~f~~~~~~~~~k~~i~~~l---------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ..|.  .-..|.+.++|+..+...++|...+         ++-+||+||||||||++++++|++++..+..-
T Consensus         7 ~~W~--~ky~P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew   76 (519)
T PF03215_consen    7 EPWV--EKYAPKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEW   76 (519)
T ss_pred             Cccc--hhcCCCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEe
Confidence            3464  3456899999999998888887777         23467899999999999999999999877653

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

Probab=98.65  E-value=9.3e-08  Score=94.31  Aligned_cols=63  Identities=29%  Similarity=0.502  Sum_probs=45.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCC-------hHHHH-HHHHhccCCeEEEEecccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQD-------NSELR-SLLIDTSSKSILVIEDIDC  288 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~-------~~~l~-~l~~~~~~~~Il~iDeiD~  288 (504)
                      +.+++||||||||||.||.|||+++   |..++.+....+-.       ..... ++......--+|+|||+=.
T Consensus       105 ~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~l~~~dlLIiDDlG~  178 (254)
T COG1484         105 GENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRELKKVDLLIIDDIGY  178 (254)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHHhhcCCEEEEecccC
Confidence            6789999999999999999999988   67777777766421       01111 2222245678999999955

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.64  E-value=8.2e-08  Score=98.01  Aligned_cols=132  Identities=22%  Similarity=0.326  Sum_probs=89.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC--------hHHHHHHHHhc------cCCeEEEEeccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD--------NSELRSLLIDT------SSKSILVIEDIDCSLD  291 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~--------~~~l~~l~~~~------~~~~Il~iDeiD~~~~  291 (504)
                      +..+||.||.|+|||.||+.+|.-++.||...||+.+..        ++-+.+++..+      .++.|+||||+|.+..
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~  305 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITK  305 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhcc
Confidence            678999999999999999999999999999999998731        13466777665      3789999999999741


Q ss_pred             ccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc---------cCCCceEEEEecC-------C
Q 037859          292 LTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS---------ASGEERIIVFTTN-------Y  355 (504)
Q Consensus       292 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~---------~~~~~~ivI~tTN-------~  355 (504)
                      ....-.                     ..-+....-+..+||..++|-.-         ..+++.+.|=|||       -
T Consensus       306 ~~~~i~---------------------~~RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnILFiasGA  364 (564)
T KOG0745|consen  306 KAESIH---------------------TSRDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNILFIASGA  364 (564)
T ss_pred             cCcccc---------------------ccccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceEEEeccc
Confidence            110000                     00112233466778888876421         1223445555555       3


Q ss_pred             CCCCChhhhcCCCce-eEEEecCCCH
Q 037859          356 VDKLDPALIRRGRMD-KHIEMSYCCF  380 (504)
Q Consensus       356 ~e~Ld~ALlRpGR~d-~~I~~~~p~~  380 (504)
                      --.||.-+.|  |+| ..+-|+.|+.
T Consensus       365 F~~Ldk~I~r--R~~d~slGFg~~s~  388 (564)
T KOG0745|consen  365 FVGLDKIISR--RLDDKSLGFGAPSS  388 (564)
T ss_pred             ccchHHHHHH--hhcchhcccCCCCC
Confidence            3567888888  774 5667777743

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.63  E-value=7.1e-08  Score=98.42  Aligned_cols=63  Identities=24%  Similarity=0.364  Sum_probs=45.5

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCC---------hHHHHHHHHhccCCeEEEEecccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQD---------NSELRSLLIDTSSKSILVIEDIDC  288 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~---------~~~l~~l~~~~~~~~Il~iDeiD~  288 (504)
                      ..+++||||||||||+|+.|||+++   +..+++++...+..         .......+......-+|+|||+..
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l~~~DLLIIDDlG~  257 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLLINCDLLIIDDLGT  257 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHhccCCEEEEeccCC
Confidence            5789999999999999999999987   67777776655311         111122234445667999999976

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.62  E-value=5.5e-08  Score=101.15  Aligned_cols=46  Identities=26%  Similarity=0.530  Sum_probs=40.3

Q ss_pred             CccccccccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhc
Q 037859          205 PATFDTLAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ...|.+|.+++..|+.+.-..  .+++||+||||||||++|+-+..-|
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTmla~Rl~~lL  222 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAAAGGHNLLLVGPPGTGKTMLASRLPGLL  222 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHHhcCCcEEEecCCCCchHHhhhhhcccC
Confidence            457999999999998887766  7889999999999999999987655

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=98.60  E-value=8.3e-07  Score=88.56  Aligned_cols=111  Identities=16%  Similarity=0.239  Sum_probs=81.5

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC----------------cEEEEeccc---cCChHHHHHHHHhc------cCCeE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY----------------DVYDLELTT---VQDNSELRSLLIDT------SSKSI  280 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~----------------~i~~l~~~~---~~~~~~l~~l~~~~------~~~~I  280 (504)
                      +.+|||+||+|+||+.+|.++|..+-+                +++.+....   .-.-+.++.+....      ...-|
T Consensus        19 ~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~~kv   98 (290)
T PRK05917         19 PSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESPYKI   98 (290)
T ss_pred             CeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCCceE
Confidence            678999999999999999999988743                244442211   11334555554443      24569


Q ss_pred             EEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCC
Q 037859          281 LVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLD  360 (504)
Q Consensus       281 l~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld  360 (504)
                      ++||++|.+                                   +....+.||..|+.-    ++..++|+.|+.++.|.
T Consensus        99 ~ii~~ad~m-----------------------------------t~~AaNaLLK~LEEP----p~~~~fiL~~~~~~~ll  139 (290)
T PRK05917         99 YIIHEADRM-----------------------------------TLDAISAFLKVLEDP----PQHGVIILTSAKPQRLP  139 (290)
T ss_pred             EEEechhhc-----------------------------------CHHHHHHHHHHhhcC----CCCeEEEEEeCChhhCc
Confidence            999999986                                   234678899998853    46689999999999999


Q ss_pred             hhhhcCCCceeEEEecCC
Q 037859          361 PALIRRGRMDKHIEMSYC  378 (504)
Q Consensus       361 ~ALlRpGR~d~~I~~~~p  378 (504)
                      |.++.  |+ ..+.|+.+
T Consensus       140 ~TI~S--Rc-q~~~~~~~  154 (290)
T PRK05917        140 PTIRS--RS-LSIHIPME  154 (290)
T ss_pred             HHHHh--cc-eEEEccch
Confidence            99999  88 57888754

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

Probab=98.60  E-value=4e-07  Score=90.30  Aligned_cols=23  Identities=35%  Similarity=0.592  Sum_probs=21.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      ++|+||||+|||++++.+++.+.
T Consensus        46 ~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        46 ILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             EEEEcCCCCCHHHHHHHHHHhcC
Confidence            78999999999999999999886

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.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=98.57  E-value=4.1e-07  Score=98.49  Aligned_cols=150  Identities=17%  Similarity=0.234  Sum_probs=96.9

Q ss_pred             CccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHH-HHH-
Q 037859          205 PATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRS-LLI-  273 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~-l~~-  273 (504)
                      ..+|+.+++.....+.+.+.+      ...+|++|++||||+++|++|-+..   +.|++.+||..+.. ..+.. +|. 
T Consensus       208 ~~~f~~iiG~S~~m~~~~~~i~~~A~~~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~e-~lleseLFG~  286 (526)
T TIGR02329       208 RYRLDDLLGASAPMEQVRALVRLYARSDATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAE-SLLEAELFGY  286 (526)
T ss_pred             ccchhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCCh-hHHHHHhcCC
Confidence            356888888887777777776      5679999999999999999997654   57899999998853 22322 222 


Q ss_pred             -----------------hccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhh
Q 037859          274 -----------------DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI  336 (504)
Q Consensus       274 -----------------~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~l  336 (504)
                                       +......|||||||.+                                   +......||..|
T Consensus       287 ~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~L-----------------------------------p~~~Q~~Ll~~L  331 (526)
T TIGR02329       287 EEGAFTGARRGGRTGLIEAAHRGTLFLDEIGEM-----------------------------------PLPLQTRLLRVL  331 (526)
T ss_pred             cccccccccccccccchhhcCCceEEecChHhC-----------------------------------CHHHHHHHHHHH
Confidence                             1234678999999986                                   223455666666


Q ss_pred             cCccc-c------CCCceEEEEecCCC-------CCCChhhhcCCCce-eEEEecCCC--HHHHHHHHHHhcC
Q 037859          337 DGLWS-A------SGEERIIVFTTNYV-------DKLDPALIRRGRMD-KHIEMSYCC--FEAFKVLAKNYLD  392 (504)
Q Consensus       337 Dg~~~-~------~~~~~ivI~tTN~~-------e~Ld~ALlRpGR~d-~~I~~~~p~--~e~~~~i~~~~l~  392 (504)
                      +.-.- .      ...++-+|+|||..       ..+.+.|..  |+. ..|++|+..  .++...|+..|+.
T Consensus       332 ~~~~~~r~g~~~~~~~dvRiIaat~~~l~~~v~~g~fr~dL~~--rL~~~~I~lPPLReR~eDI~~L~~~fl~  402 (526)
T TIGR02329       332 EEREVVRVGGTEPVPVDVRVVAATHCALTTAVQQGRFRRDLFY--RLSILRIALPPLRERPGDILPLAAEYLV  402 (526)
T ss_pred             hcCcEEecCCCceeeecceEEeccCCCHHHHhhhcchhHHHHH--hcCCcEEeCCCchhchhHHHHHHHHHHH
Confidence            42110 0      01123577777643       123445554  553 456666643  3566777788774

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.

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.56  E-value=8.5e-07  Score=96.43  Aligned_cols=85  Identities=15%  Similarity=0.249  Sum_probs=61.9

Q ss_pred             CCccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHH-HHHH
Q 037859          204 HPATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELR-SLLI  273 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~-~l~~  273 (504)
                      ...+|+.+++.....+++++.+      ...+||+|++||||+++|+++-...   +.+++.++|..+.. ..+. .+|.
T Consensus       199 ~~~~f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~~-~~~e~elFG  277 (520)
T PRK10820        199 DDSAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPD-DVVESELFG  277 (520)
T ss_pred             ccccccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCCH-HHHHHHhcC
Confidence            3446888888877667677666      5669999999999999999985543   46899999998753 2222 2332


Q ss_pred             -----------------hccCCeEEEEeccccc
Q 037859          274 -----------------DTSSKSILVIEDIDCS  289 (504)
Q Consensus       274 -----------------~~~~~~Il~iDeiD~~  289 (504)
                                       +......|||||||.+
T Consensus       278 ~~~~~~~~~~~~~~g~~e~a~~GtL~LdeI~~L  310 (520)
T PRK10820        278 HAPGAYPNALEGKKGFFEQANGGSVLLDEIGEM  310 (520)
T ss_pred             CCCCCcCCcccCCCChhhhcCCCEEEEeChhhC
Confidence                             1234678999999986

>PRK06921 hypothetical protein; Provisional

Probab=98.55  E-value=1.3e-07  Score=94.03  Aligned_cols=63  Identities=27%  Similarity=0.356  Sum_probs=44.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc----CCcEEEEeccccCCh-----HHHHHHHHhccCCeEEEEecccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL----NYDVYDLELTTVQDN-----SELRSLLIDTSSKSILVIEDIDC  288 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~~~~~-----~~l~~l~~~~~~~~Il~iDeiD~  288 (504)
                      ..+++|+||||||||+|+.|||+++    +..++++....+-..     ..+...+.......+|+|||++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~~~~~~~~~~~~~~~dlLiIDDl~~  188 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDDFDLLEAKLNRMKKVEVLFIDDLFK  188 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHHHHHHHHHHHHhcCCCEEEEecccc
Confidence            3579999999999999999999986    566677765432110     11222333445678999999954

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.55  E-value=1.5e-07  Score=84.06  Aligned_cols=58  Identities=24%  Similarity=0.382  Sum_probs=43.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC---cEEEEeccccCChHHHHHHHHhccCCeEEEEeccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY---DVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCS  289 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~---~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~  289 (504)
                      ...+||+|+|||||+++|++|....+.   +++.+++....     .+++.. ..+..|+|+|||.+
T Consensus        21 ~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~-----~~~l~~-a~~gtL~l~~i~~L   81 (138)
T PF14532_consen   21 SSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP-----AELLEQ-AKGGTLYLKNIDRL   81 (138)
T ss_dssp             SS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC-----HHHHHH-CTTSEEEEECGCCS
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc-----HHHHHH-cCCCEEEECChHHC
Confidence            567999999999999999999887754   44555555543     334444 38889999999996

>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=98.54  E-value=2.2e-06  Score=83.32  Aligned_cols=64  Identities=27%  Similarity=0.326  Sum_probs=54.9

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhcc-CCeEEEEeccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTS-SKSILVIEDIDCS  289 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~-~~~Il~iDeiD~~  289 (504)
                      ..|-.++||+|||||.+++++|+.+|..++.++|+...+...+.++|..+. ..+-+++||+|.+
T Consensus        32 ~~~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~~~~l~ril~G~~~~GaW~cfdefnrl   96 (231)
T PF12774_consen   32 NLGGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQMDYQSLSRILKGLAQSGAWLCFDEFNRL   96 (231)
T ss_dssp             TTEEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-HHHHHHHHHHHHHHT-EEEEETCCCS
T ss_pred             CCCCCCcCCCCCCchhHHHHHHHHhCCeEEEecccccccHHHHHHHHHHHhhcCchhhhhhhhhh
Confidence            467789999999999999999999999999999999888899999997765 6899999999986

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=98.53  E-value=3.8e-06  Score=82.28  Aligned_cols=111  Identities=17%  Similarity=0.165  Sum_probs=79.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC----------------------cEEEEeccc-cCChHHHHHHHHh---cc---
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY----------------------DVYDLELTT-VQDNSELRSLLID---TS---  276 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~----------------------~i~~l~~~~-~~~~~~l~~l~~~---~~---  276 (504)
                      +.++||+||+|+||..+|.++|..+-+                      +++.+.-.. .-..++++.+...   .+   
T Consensus         7 ~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~e~   86 (261)
T PRK05818          7 THPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSVES   86 (261)
T ss_pred             CcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCchhc
Confidence            678999999999999999999987622                      233321111 1123444444332   22   


Q ss_pred             -CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCC
Q 037859          277 -SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNY  355 (504)
Q Consensus       277 -~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~  355 (504)
                       ..-|++|+++|.+                                   +....+.||..++.-    +...++|++|+.
T Consensus        87 ~~~KV~II~~ae~m-----------------------------------~~~AaNaLLK~LEEP----p~~t~fiLit~~  127 (261)
T PRK05818         87 NGKKIYIIYGIEKL-----------------------------------NKQSANSLLKLIEEP----PKNTYGIFTTRN  127 (261)
T ss_pred             CCCEEEEeccHhhh-----------------------------------CHHHHHHHHHhhcCC----CCCeEEEEEECC
Confidence             3579999999986                                   344678899998853    466899999999


Q ss_pred             CCCCChhhhcCCCceeEEEecCC
Q 037859          356 VDKLDPALIRRGRMDKHIEMSYC  378 (504)
Q Consensus       356 ~e~Ld~ALlRpGR~d~~I~~~~p  378 (504)
                      ++.|.|.+++  |+ ..+.++.+
T Consensus       128 ~~~lLpTI~S--RC-q~~~~~~~  147 (261)
T PRK05818        128 ENNILNTILS--RC-VQYVVLSK  147 (261)
T ss_pred             hHhCchHhhh--he-eeeecCCh
Confidence            9999999999  88 45777665

>PF13173 AAA_14: AAA domain

Probab=98.51  E-value=2.3e-07  Score=81.75  Aligned_cols=63  Identities=24%  Similarity=0.440  Sum_probs=47.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcC--CcEEEEeccccCChH----HHHHHHHhc--cCCeEEEEeccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLN--YDVYDLELTTVQDNS----ELRSLLIDT--SSKSILVIEDIDCS  289 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~--~~i~~l~~~~~~~~~----~l~~l~~~~--~~~~Il~iDeiD~~  289 (504)
                      +-++|+||.|||||++++.++..+.  .++.++++.......    ++.+.+.+.  ..+.+||||||+.+
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iDEiq~~   73 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPDLLEYFLELIKPGKKYIFIDEIQYL   73 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhhhHHHHHHhhccCCcEEEEehhhhh
Confidence            4578999999999999999998876  788888887653211    133444443  36799999999874

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

Probab=98.50  E-value=1.2e-07  Score=81.00  Aligned_cols=61  Identities=23%  Similarity=0.369  Sum_probs=38.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCeEEEEeccccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCS  289 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~  289 (504)
                      +.||||||+|||++++.||..+...+-.-....+-....-.+.+..-....|+++||+...
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~~~~~~~~w~gY~~q~vvi~DD~~~~   61 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYTRNPGDKFWDGYQGQPVVIIDDFGQD   61 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEeCCCccchhhccCCCcEEEEeecCcc
Confidence            5789999999999999998877432211100111001112234455567789999999763

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

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.50  E-value=5.1e-07  Score=93.47  Aligned_cols=153  Identities=16%  Similarity=0.187  Sum_probs=99.2

Q ss_pred             CCccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHh----cCCcEEEEeccccCChHHHHHHHH
Q 037859          204 HPATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANF----LNYDVYDLELTTVQDNSELRSLLI  273 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~----l~~~i~~l~~~~~~~~~~l~~l~~  273 (504)
                      ....++.+++.....+++++.+      ...+|++|++||||+.+|++|...    .+-|++.+||..+..+.....+|.
T Consensus        73 ~~~~~~~LIG~~~~~~~~~eqik~~ap~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~en~~~~eLFG  152 (403)
T COG1221          73 KSEALDDLIGESPSLQELREQIKAYAPSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQEAELFG  152 (403)
T ss_pred             cchhhhhhhccCHHHHHHHHHHHhhCCCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhCcCHHHHHHhc
Confidence            3445788888887777777766      455999999999999999999643    366899999999977666655664


Q ss_pred             hc-----------------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhh
Q 037859          274 DT-----------------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI  336 (504)
Q Consensus       274 ~~-----------------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~l  336 (504)
                      -.                 ....+||+|||..+-                                   ....-.||..|
T Consensus       153 ~~kGaftGa~~~k~Glfe~A~GGtLfLDEI~~LP-----------------------------------~~~Q~kLl~~l  197 (403)
T COG1221         153 HEKGAFTGAQGGKAGLFEQANGGTLFLDEIHRLP-----------------------------------PEGQEKLLRVL  197 (403)
T ss_pred             cccceeecccCCcCchheecCCCEEehhhhhhCC-----------------------------------HhHHHHHHHHH
Confidence            22                 245799999998851                                   22344566666


Q ss_pred             cCcc-------ccCCCceEEEEecCC--CCCCCh--hhhcCCCceeEEEecCC--CHHHHHHHHHHhcC
Q 037859          337 DGLW-------SASGEERIIVFTTNY--VDKLDP--ALIRRGRMDKHIEMSYC--CFEAFKVLAKNYLD  392 (504)
Q Consensus       337 Dg~~-------~~~~~~~ivI~tTN~--~e~Ld~--ALlRpGR~d~~I~~~~p--~~e~~~~i~~~~l~  392 (504)
                      |.-.       ......+-+|++||-  .+.+-.  .|.|. |+...|++|..  ..+++..++..|+.
T Consensus       198 e~g~~~rvG~~~~~~~dVRli~AT~~~l~~~~~~g~dl~~r-l~~~~I~LPpLrER~~Di~~L~e~Fl~  265 (403)
T COG1221         198 EEGEYRRVGGSQPRPVDVRLICATTEDLEEAVLAGADLTRR-LNILTITLPPLRERKEDILLLAEHFLK  265 (403)
T ss_pred             HcCceEecCCCCCcCCCceeeeccccCHHHHHHhhcchhhh-hcCceecCCChhhchhhHHHHHHHHHH
Confidence            6311       112345677887762  122222  34431 55566666654  34555566777764

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.49  E-value=9.6e-07  Score=99.35  Aligned_cols=83  Identities=20%  Similarity=0.348  Sum_probs=62.2

Q ss_pred             ccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHH-HH---
Q 037859          206 ATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRS-LL---  272 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~-l~---  272 (504)
                      ..|+.+++.....+.+++.+      ...+|++|+||||||++|++|....   +.+++.++|..+... .+.. +|   
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~~-~~~~~lfg~~  451 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAG-LLESDLFGHE  451 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCChh-HhhhhhcCcc
Confidence            45788888888888877766      5569999999999999999998754   578999999887421 1111 11   


Q ss_pred             --------------HhccCCeEEEEeccccc
Q 037859          273 --------------IDTSSKSILVIEDIDCS  289 (504)
Q Consensus       273 --------------~~~~~~~Il~iDeiD~~  289 (504)
                                    .+...+..|||||||.+
T Consensus       452 ~~~~~g~~~~~~g~le~a~~GtL~Ldei~~L  482 (686)
T PRK15429        452 RGAFTGASAQRIGRFELADKSSLFLDEVGDM  482 (686)
T ss_pred             cccccccccchhhHHHhcCCCeEEEechhhC
Confidence                          12345689999999986

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=98.49  E-value=9.3e-07  Score=95.75  Aligned_cols=83  Identities=17%  Similarity=0.264  Sum_probs=62.8

Q ss_pred             ccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHh-----------cCCcEEEEeccccCChHHH
Q 037859          206 ATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANF-----------LNYDVYDLELTTVQDNSEL  268 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~-----------l~~~i~~l~~~~~~~~~~l  268 (504)
                      ..|+.+++.....+.+.+.+      ...+||+|++||||+.+|++|-+.           -+.|++.+||..+.. ..+
T Consensus       216 ~~f~~iiG~S~~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaal~e-~ll  294 (538)
T PRK15424        216 YVLGDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGAIAE-SLL  294 (538)
T ss_pred             cchhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeecccCCh-hhH
Confidence            35888888887777777766      556999999999999999999776           467899999998853 223


Q ss_pred             HH-HHH------------------hccCCeEEEEeccccc
Q 037859          269 RS-LLI------------------DTSSKSILVIEDIDCS  289 (504)
Q Consensus       269 ~~-l~~------------------~~~~~~Il~iDeiD~~  289 (504)
                      .. +|.                  +......||||||+.+
T Consensus       295 eseLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~L  334 (538)
T PRK15424        295 EAELFGYEEGAFTGSRRGGRAGLFEIAHGGTLFLDEIGEM  334 (538)
T ss_pred             HHHhcCCccccccCccccccCCchhccCCCEEEEcChHhC
Confidence            22 222                  1234578999999986

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=98.47  E-value=5.6e-07  Score=101.07  Aligned_cols=127  Identities=17%  Similarity=0.232  Sum_probs=77.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCc-------EEEEeccccCC-h----H--HHHHHHHhccCCeEEEEeccccccccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYD-------VYDLELTTVQD-N----S--ELRSLLIDTSSKSILVIEDIDCSLDLT  293 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~-------i~~l~~~~~~~-~----~--~l~~l~~~~~~~~Il~iDeiD~~~~~~  293 (504)
                      .+||.|+||||||.+++++++.....       ...+.+..... .    .  .+..-....+...+++|||+|.+    
T Consensus       494 hVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~vgLTa~~~~~d~~tG~~~le~GaLvlAdgGtL~IDEidkm----  569 (915)
T PTZ00111        494 NVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSVGLTASIKFNESDNGRAMIQPGAVVLANGGVCCIDELDKC----  569 (915)
T ss_pred             eEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccccccchhhhcccccCcccccCCcEEEcCCCeEEecchhhC----
Confidence            48999999999999999999865433       23333332210 0    0  00000011235689999999985    


Q ss_pred             ccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC---------ccccCCCceEEEEecCCCC-------
Q 037859          294 GQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG---------LWSASGEERIIVFTTNYVD-------  357 (504)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg---------~~~~~~~~~ivI~tTN~~e-------  357 (504)
                                                     +....+.|+..|+.         +...-....-||+|+|+.+       
T Consensus       570 -------------------------------s~~~Q~aLlEaMEqqtIsI~KaGi~~tL~ar~rVIAAaNP~~gryd~~~  618 (915)
T PTZ00111        570 -------------------------------HNESRLSLYEVMEQQTVTIAKAGIVATLKAETAILASCNPINSRYNKNK  618 (915)
T ss_pred             -------------------------------CHHHHHHHHHHHhCCEEEEecCCcceecCCCeEEEEEcCCcccccCccc
Confidence                                           12244556665532         2111123467899999752       


Q ss_pred             ------CCChhhhcCCCceeEE-EecCCCHHHHHHHHHHhc
Q 037859          358 ------KLDPALIRRGRMDKHI-EMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       358 ------~Ld~ALlRpGR~d~~I-~~~~p~~e~~~~i~~~~l  391 (504)
                            .|+++|+.  |||... -++.|+.+.=+.|+.+.+
T Consensus       619 s~~eni~Lp~~LLS--RFDLIf~l~D~~d~~~D~~lA~hI~  657 (915)
T PTZ00111        619 AVIENINISPSLFT--RFDLIYLVLDHIDQDTDQLISLSIA  657 (915)
T ss_pred             CcccccCCChHHhh--hhcEEEEecCCCChHHHHHHHHHHH
Confidence                  37899999  999775 457888776666665544

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=98.47  E-value=1.7e-06  Score=94.05  Aligned_cols=82  Identities=15%  Similarity=0.235  Sum_probs=61.7

Q ss_pred             cccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHH-HHHH---
Q 037859          207 TFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELR-SLLI---  273 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~-~l~~---  273 (504)
                      .+..+++.....+.+.+.+      ...+||+|++||||+.+|++|....   +.+++.++|..+... .+. .+|.   
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~-~~e~~lfG~~~  263 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPES-LAESELFGHVK  263 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChH-HHHHHhcCccc
Confidence            3566777777777777777      6679999999999999999998764   568999999988532 222 2222   


Q ss_pred             --------------hccCCeEEEEeccccc
Q 037859          274 --------------DTSSKSILVIEDIDCS  289 (504)
Q Consensus       274 --------------~~~~~~Il~iDeiD~~  289 (504)
                                    +......|||||||.+
T Consensus       264 g~~~ga~~~~~g~~~~a~gGtL~ldeI~~L  293 (509)
T PRK05022        264 GAFTGAISNRSGKFELADGGTLFLDEIGEL  293 (509)
T ss_pred             cccCCCcccCCcchhhcCCCEEEecChhhC
Confidence                          1234578999999986

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=98.44  E-value=2.5e-06  Score=85.34  Aligned_cols=129  Identities=21%  Similarity=0.219  Sum_probs=88.8

Q ss_pred             hhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cEEEEecccc-CC
Q 037859          215 TKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DVYDLELTTV-QD  264 (504)
Q Consensus       215 ~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i~~l~~~~~-~~  264 (504)
                      +..++.+...+     +.+|||+||  +||+++|.++|..+.+                        +++.+..... -.
T Consensus         8 ~~~~~~L~~~~~~~rl~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~~~i~p~~~~I~   85 (290)
T PRK07276          8 PKVFQRFQTILEQDRLNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDVTVIEPQGQVIK   85 (290)
T ss_pred             HHHHHHHHHHHHcCCcceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCeeeecCCCCcCC
Confidence            44444555444     667999996  6899999999986632                        2333322211 13


Q ss_pred             hHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          265 NSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       265 ~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                      -+.+|.+....      +..-|++||++|.+                                   +....+.||..++.
T Consensus        86 idqIR~l~~~~~~~p~~~~~kV~II~~ad~m-----------------------------------~~~AaNaLLKtLEE  130 (290)
T PRK07276         86 TDTIRELVKNFSQSGYEGKQQVFIIKDADKM-----------------------------------HVNAANSLLKVIEE  130 (290)
T ss_pred             HHHHHHHHHHHhhCcccCCcEEEEeehhhhc-----------------------------------CHHHHHHHHHHhcC
Confidence            35666655443      24579999999986                                   23467889999985


Q ss_pred             ccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHH
Q 037859          339 LWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAK  388 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~  388 (504)
                      -    +...++|++|+.++.|-|.+++  |+ .+|.|+. +.+....++.
T Consensus       131 P----p~~t~~iL~t~~~~~lLpTI~S--Rc-q~i~f~~-~~~~~~~~L~  172 (290)
T PRK07276        131 P----QSEIYIFLLTNDENKVLPTIKS--RT-QIFHFPK-NEAYLIQLLE  172 (290)
T ss_pred             C----CCCeEEEEEECChhhCchHHHH--cc-eeeeCCC-cHHHHHHHHH
Confidence            3    4558899999999999999999  88 6899966 5555555554

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

Probab=98.43  E-value=5.4e-07  Score=78.99  Aligned_cols=63  Identities=30%  Similarity=0.498  Sum_probs=42.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc--------CCcEEEEeccccCChHHHHHH---------------------HHhc--
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL--------NYDVYDLELTTVQDNSELRSL---------------------LIDT--  275 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l--------~~~i~~l~~~~~~~~~~l~~l---------------------~~~~--  275 (504)
                      +.++++||||+|||++++.++..+        +.+++.+++....+...+...                     +...  
T Consensus         5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~   84 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALD   84 (131)
T ss_dssp             --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHH
T ss_pred             cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHH
Confidence            457899999999999999999987        678888877665433332222                     1111  


Q ss_pred             -cCCeEEEEeccccc
Q 037859          276 -SSKSILVIEDIDCS  289 (504)
Q Consensus       276 -~~~~Il~iDeiD~~  289 (504)
                       ....+|+|||+|.+
T Consensus        85 ~~~~~~lviDe~~~l   99 (131)
T PF13401_consen   85 RRRVVLLVIDEADHL   99 (131)
T ss_dssp             HCTEEEEEEETTHHH
T ss_pred             hcCCeEEEEeChHhc
Confidence             12359999999985

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=98.43  E-value=3.1e-07  Score=90.87  Aligned_cols=149  Identities=16%  Similarity=0.184  Sum_probs=93.4

Q ss_pred             ecCCCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhcCCc------EEEEeccccC---ChHH
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLNYD------VYDLELTTVQ---DNSE  267 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~~~------i~~l~~~~~~---~~~~  267 (504)
                      +-..|..+..++...+....+....    -...|+|||||||||+.+.|.|..+-.+      +..++.++-.   -...
T Consensus        33 ekyrP~~l~dv~~~~ei~st~~~~~~~~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaSd~rgid~vr~  112 (360)
T KOG0990|consen   33 EKYRPPFLGIVIKQEPIWSTENRYSGMPGLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNASDDRGIDPVRQ  112 (360)
T ss_pred             cCCCCchhhhHhcCCchhhHHHHhccCCCCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhccCccCCcchHH
Confidence            4556777777777776655555544    2268999999999999999999988552      1223333221   1112


Q ss_pred             HHHHHHhcc---------CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          268 LRSLLIDTS---------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       268 l~~l~~~~~---------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                      -.+.|..+.         ..-.+++||+|++-                                   +...++|-..+..
T Consensus       113 qi~~fast~~~~~fst~~~fKlvILDEADaMT-----------------------------------~~AQnALRRviek  157 (360)
T KOG0990|consen  113 QIHLFASTQQPTTYSTHAAFKLVILDEADAMT-----------------------------------RDAQNALRRVIEK  157 (360)
T ss_pred             HHHHHHhhccceeccccCceeEEEecchhHhh-----------------------------------HHHHHHHHHHHHH
Confidence            233444443         45689999999851                                   2233444445544


Q ss_pred             ccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          339 LWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      +    ..+.-|..-+|++..+.||+..  |+. ...|...+..+......+..
T Consensus       158 ~----t~n~rF~ii~n~~~ki~pa~qs--Rct-rfrf~pl~~~~~~~r~shi~  203 (360)
T KOG0990|consen  158 Y----TANTRFATISNPPQKIHPAQQS--RCT-RFRFAPLTMAQQTERQSHIR  203 (360)
T ss_pred             h----ccceEEEEeccChhhcCchhhc--ccc-cCCCCCCChhhhhhHHHHHH
Confidence            3    2334555778999999999998  773 56666655555554444444

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=98.43  E-value=3e-06  Score=85.42  Aligned_cols=123  Identities=20%  Similarity=0.248  Sum_probs=90.1

Q ss_pred             hcccccccCCCCCcHHHHHHHHHHhcCC-------------cEEEEeccc-cCChHHHHHHHHhc-------cCCeEEEE
Q 037859          225 LKKGYLLYGPPGTGKSTMIAAMANFLNY-------------DVYDLELTT-VQDNSELRSLLIDT-------SSKSILVI  283 (504)
Q Consensus       225 l~rg~LL~GPpGtGKTsla~aiA~~l~~-------------~i~~l~~~~-~~~~~~l~~l~~~~-------~~~~Il~i  283 (504)
                      +...|||||+.|+||+.+++++|+.+.+             ++..++... .-..++++.+....       +.+-|++|
T Consensus        17 l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir~l~~~~~~~~~~~~~~KvvII   96 (299)
T PRK07132         17 ISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFLSAINKLYFSSFVQSQKKILII   96 (299)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHHHHHHHhccCCcccCCceEEEE
Confidence            3677999999999999999999998722             233343111 12335666665544       25679999


Q ss_pred             ecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhh
Q 037859          284 EDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPAL  363 (504)
Q Consensus       284 DeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~AL  363 (504)
                      |++|.+                                   +....+.||..|+..    ++..++|++|+.++.|-|++
T Consensus        97 ~~~e~m-----------------------------------~~~a~NaLLK~LEEP----p~~t~~il~~~~~~kll~TI  137 (299)
T PRK07132         97 KNIEKT-----------------------------------SNSLLNALLKTIEEP----PKDTYFLLTTKNINKVLPTI  137 (299)
T ss_pred             eccccc-----------------------------------CHHHHHHHHHHhhCC----CCCeEEEEEeCChHhChHHH
Confidence            999875                                   233567899998864    45578888888889999999


Q ss_pred             hcCCCceeEEEecCCCHHHHHHHHHH
Q 037859          364 IRRGRMDKHIEMSYCCFEAFKVLAKN  389 (504)
Q Consensus       364 lRpGR~d~~I~~~~p~~e~~~~i~~~  389 (504)
                      ..  |+ ..++|..++.++....+..
T Consensus       138 ~S--Rc-~~~~f~~l~~~~l~~~l~~  160 (299)
T PRK07132        138 VS--RC-QVFNVKEPDQQKILAKLLS  160 (299)
T ss_pred             Hh--Ce-EEEECCCCCHHHHHHHHHH
Confidence            98  87 6799999998888765554

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.42  E-value=2.3e-06  Score=85.25  Aligned_cols=36  Identities=28%  Similarity=0.482  Sum_probs=33.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT  261 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  261 (504)
                      |+++|..||.|+|||-+|+-+|+..+.|++.+..+.
T Consensus        50 PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVEATK   85 (444)
T COG1220          50 PKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATK   85 (444)
T ss_pred             ccceEEECCCCCcHHHHHHHHHHHhCCCeEEEEeee
Confidence            999999999999999999999999999988876654

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=98.41  E-value=5.9e-06  Score=80.81  Aligned_cols=27  Identities=41%  Similarity=0.673  Sum_probs=25.5

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      .|++||-||||||||.||-||+.+||-
T Consensus        64 GravLlaGppgtGKTAlAlaisqELG~   90 (456)
T KOG1942|consen   64 GRAVLLAGPPGTGKTALALAISQELGP   90 (456)
T ss_pred             CcEEEEecCCCCchhHHHHHHHHHhCC
Confidence            789999999999999999999999964

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=98.41  E-value=2.5e-06  Score=94.21  Aligned_cols=48  Identities=38%  Similarity=0.505  Sum_probs=41.1

Q ss_pred             ccccccccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          206 ATFDTLAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      ..++.++++++.++.+...+  +++++|+||||||||++++++|+.++.+
T Consensus        15 ~~~~~viG~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~la~~la~~l~~~   64 (608)
T TIGR00764        15 RLIDQVIGQEEAVEIIKKAAKQKRNVLLIGEPGVGKSMLAKAMAELLPDE   64 (608)
T ss_pred             hhHhhccCHHHHHHHHHHHHHcCCCEEEECCCCCCHHHHHHHHHHHcCch
Confidence            45788888888887777666  6789999999999999999999999754

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.34  E-value=4.2e-06  Score=81.40  Aligned_cols=152  Identities=18%  Similarity=0.245  Sum_probs=105.1

Q ss_pred             CCCccccccccChhHHHHHHHhhc----ccccccCCCCCcHHHHHHHHHHhc-CCcEE----------------------
Q 037859          203 EHPATFDTLAMETKKKEEIKKDLK----KGYLLYGPPGTGKSTMIAAMANFL-NYDVY----------------------  255 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l~----rg~LL~GPpGtGKTsla~aiA~~l-~~~i~----------------------  255 (504)
                      -.|+.|+.+....+....+....-    -.+|+|||+|+||-+.+.++-+++ |..+.                      
T Consensus         7 yrpksl~~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistv   86 (351)
T KOG2035|consen    7 YRPKSLDELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTV   86 (351)
T ss_pred             cCcchhhhcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEe
Confidence            467888888888877777766552    358999999999999999998877 21111                      


Q ss_pred             ------EEeccccCChH--HHHHHHHhcc-----------CCeEEEEecccccccccccccccccccccccccCcccccc
Q 037859          256 ------DLELTTVQDNS--ELRSLLIDTS-----------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKE  316 (504)
Q Consensus       256 ------~l~~~~~~~~~--~l~~l~~~~~-----------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  316 (504)
                            .++.++.+..+  -++.++.+.+           .=-+++|-|+|.+                           
T Consensus        87 sS~yHlEitPSDaG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~L---------------------------  139 (351)
T KOG2035|consen   87 SSNYHLEITPSDAGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADEL---------------------------  139 (351)
T ss_pred             cccceEEeChhhcCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhh---------------------------
Confidence                  11122222111  1344443321           1248999999986                           


Q ss_pred             cccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCc
Q 037859          317 KEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSH  396 (504)
Q Consensus       317 ~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~  396 (504)
                              .+....+|-.-|+.+.+.|    -+|+.+|...++=+++..  |+ ..|.++.|+.++...++...+..+..
T Consensus       140 --------T~dAQ~aLRRTMEkYs~~~----RlIl~cns~SriIepIrS--RC-l~iRvpaps~eeI~~vl~~v~~kE~l  204 (351)
T KOG2035|consen  140 --------TRDAQHALRRTMEKYSSNC----RLILVCNSTSRIIEPIRS--RC-LFIRVPAPSDEEITSVLSKVLKKEGL  204 (351)
T ss_pred             --------hHHHHHHHHHHHHHHhcCc----eEEEEecCcccchhHHhh--he-eEEeCCCCCHHHHHHHHHHHHHHhcc
Confidence                    2234556666677665444    478889999999999999  87 78999999999999998888765543

>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=98.33  E-value=3.1e-06  Score=81.26  Aligned_cols=169  Identities=24%  Similarity=0.304  Sum_probs=82.7

Q ss_pred             hhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhcCCc---EEEEeccccCC-----------------------
Q 037859          215 TKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLNYD---VYDLELTTVQD-----------------------  264 (504)
Q Consensus       215 ~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~~~---i~~l~~~~~~~-----------------------  264 (504)
                      +...+.|.+.+    .+.++||||.|+|||+|++.+.+.+.-.   .++++......                       
T Consensus         5 ~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~   84 (234)
T PF01637_consen    5 EKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRSFIEETSLADELSEALGI   84 (234)
T ss_dssp             HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHHHHHHHHHHCHCHHHHHH
T ss_pred             HHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHHHHHHHHHHHHHHHHHhh
Confidence            33445555555    3568999999999999999999988321   11111111000                       


Q ss_pred             ------------------hHHHHHHH---HhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCc
Q 037859          265 ------------------NSELRSLL---IDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSK  323 (504)
Q Consensus       265 ------------------~~~l~~l~---~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  323 (504)
                                        ...+..++   .....+.||+|||+|.+. . +.                           .
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~-~-~~---------------------------~  135 (234)
T PF01637_consen   85 SIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLA-I-AS---------------------------E  135 (234)
T ss_dssp             HCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGG-B-CT---------------------------T
T ss_pred             hcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHh-h-cc---------------------------c
Confidence                              01122222   222345999999999974 0 00                           1


Q ss_pred             chhhHHHHHhhhhcCccccCCCceEEEEecCC-----CCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcc-
Q 037859          324 KSKVTLSGLLNFIDGLWSASGEERIIVFTTNY-----VDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHE-  397 (504)
Q Consensus       324 ~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~-----~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~-  397 (504)
                      .....+..|.+.++.... ...-.+|+++++.     ...-.+.+..  |+.. +.+++.+.++...+++..+... .. 
T Consensus       136 ~~~~~~~~l~~~~~~~~~-~~~~~~v~~~S~~~~~~~~~~~~~~~~~--~~~~-~~l~~l~~~e~~~~~~~~~~~~-~~~  210 (234)
T PF01637_consen  136 EDKDFLKSLRSLLDSLLS-QQNVSIVITGSSDSLMEEFLDDKSPLFG--RFSH-IELKPLSKEEAREFLKELFKEL-IKL  210 (234)
T ss_dssp             TTHHHHHHHHHHHHH-----TTEEEEEEESSHHHHHHTT-TTSTTTT-----E-EEE----HHHHHHHHHHHHHCC----
T ss_pred             chHHHHHHHHHHHhhccc-cCCceEEEECCchHHHHHhhcccCcccc--ccce-EEEeeCCHHHHHHHHHHHHHHh-hcc
Confidence            123456667777766322 2222344444431     0112334444  8866 9999999999999988865332 21 


Q ss_pred             --hHHHHhcCccCCCCCHHHHH
Q 037859          398 --LYAVIESMPAETNMTPADVA  417 (504)
Q Consensus       398 --~~~~i~~l~~~~~~s~a~i~  417 (504)
                        ....++.+...+|=.|..|.
T Consensus       211 ~~~~~~~~~i~~~~gG~P~~l~  232 (234)
T PF01637_consen  211 PFSDEDIEEIYSLTGGNPRYLQ  232 (234)
T ss_dssp             ---HHHHHHHHHHHTT-HHHHH
T ss_pred             cCCHHHHHHHHHHhCCCHHHHh
Confidence              12233433333444455554

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

>PF05729 NACHT: NACHT domain

Probab=98.30  E-value=3.3e-06  Score=76.64  Aligned_cols=64  Identities=25%  Similarity=0.491  Sum_probs=40.6

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCC--------c-EEEEeccccCChH---HHHHHH------------------Hhcc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNY--------D-VYDLELTTVQDNS---ELRSLL------------------IDTS  276 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~--------~-i~~l~~~~~~~~~---~l~~l~------------------~~~~  276 (504)
                      |-++++|+||+|||++++.++..+..        . ++.+.+.......   .+...+                  ....
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   80 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKN   80 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcC
Confidence            34789999999999999999977621        1 2344444332111   222222                  2234


Q ss_pred             CCeEEEEecccccc
Q 037859          277 SKSILVIEDIDCSL  290 (504)
Q Consensus       277 ~~~Il~iDeiD~~~  290 (504)
                      .+.+|+||.+|.+.
T Consensus        81 ~~~llilDglDE~~   94 (166)
T PF05729_consen   81 KRVLLILDGLDELE   94 (166)
T ss_pred             CceEEEEechHhcc
Confidence            67899999999863

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.29  E-value=5.3e-06  Score=95.61  Aligned_cols=134  Identities=19%  Similarity=0.277  Sum_probs=98.0

Q ss_pred             HHHHHhh--cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHh--------------------cc
Q 037859          219 EEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLID--------------------TS  276 (504)
Q Consensus       219 ~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~--------------------~~  276 (504)
                      .+++..+  .+++||.|.||+|||+|+.|+|+..|..++.++++...   +|..+|..                    ..
T Consensus      1534 ~rVlRAmqv~kpilLEGsPGVGKTSlItaLAr~tG~kliRINLSeQT---dL~DLfGsd~Pve~~Gef~w~dapfL~amr 1610 (4600)
T COG5271        1534 RRVLRAMQVGKPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQT---DLCDLFGSDLPVEEGGEFRWMDAPFLHAMR 1610 (4600)
T ss_pred             HHHHHHHhcCCceeecCCCCccHHHHHHHHHHHhcCceEEeeccccc---hHHHHhCCCCCcccCceeEecccHHHHHhh
Confidence            3455555  89999999999999999999999999999999998763   35555533                    23


Q ss_pred             CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc----------ccCCCc
Q 037859          277 SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW----------SASGEE  346 (504)
Q Consensus       277 ~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~----------~~~~~~  346 (504)
                      ...-+++||+.-.                                   ++.++-+|-..+|.-.          -.+.++
T Consensus      1611 ~G~WVlLDEiNLa-----------------------------------SQSVlEGLNacLDhR~eayIPEld~~f~~Hpn 1655 (4600)
T COG5271        1611 DGGWVLLDEINLA-----------------------------------SQSVLEGLNACLDHRREAYIPELDKTFDVHPN 1655 (4600)
T ss_pred             cCCEEEeehhhhh-----------------------------------HHHHHHHHHHHHhhccccccccccceeeccCC
Confidence            5567889999753                                   3345666655555321          123344


Q ss_pred             eEEEEecCCC------CCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          347 RIIVFTTNYV------DKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       347 ~ivI~tTN~~------e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      ..|++|-|+-      ..||..++.  || ..|+|+..+.+....|++..++.
T Consensus      1656 frVFAaqNPq~qggGRKgLPkSF~n--RF-svV~~d~lt~dDi~~Ia~~~yp~ 1705 (4600)
T COG5271        1656 FRVFAAQNPQDQGGGRKGLPKSFLN--RF-SVVKMDGLTTDDITHIANKMYPQ 1705 (4600)
T ss_pred             eeeeeecCchhcCCCcccCCHHHhh--hh-heEEecccccchHHHHHHhhCCc
Confidence            5566666643      359999999  99 58999999999988888877653

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.28  E-value=2.9e-06  Score=95.28  Aligned_cols=111  Identities=22%  Similarity=0.369  Sum_probs=73.8

Q ss_pred             ccccChhHHHHHHHhh-------cc--c---ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC-------C---
Q 037859          210 TLAMETKKKEEIKKDL-------KK--G---YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ-------D---  264 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l-------~r--g---~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~-------~---  264 (504)
                      .|+++.+.-..|-+.+       .+  +   +||.||.|+|||-||+|+|.++   .-.++.+|++...       +   
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            4566666666666666       11  2   7899999999999999999988   3458888888621       1   


Q ss_pred             ---hHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          265 ---NSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       265 ---~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                         .+..-.+....  ...+||||||||..                                   ....++.|+..+|..
T Consensus       643 yvG~e~gg~LteavrrrP~sVVLfdeIEkA-----------------------------------h~~v~n~llq~lD~G  687 (898)
T KOG1051|consen  643 YVGKEEGGQLTEAVKRRPYSVVLFEEIEKA-----------------------------------HPDVLNILLQLLDRG  687 (898)
T ss_pred             cccchhHHHHHHHHhcCCceEEEEechhhc-----------------------------------CHHHHHHHHHHHhcC
Confidence               12222333333  35699999999974                                   234667777777643


Q ss_pred             cccCC-------CceEEEEecCC
Q 037859          340 WSASG-------EERIIVFTTNY  355 (504)
Q Consensus       340 ~~~~~-------~~~ivI~tTN~  355 (504)
                      .-..+       .+.|||||+|.
T Consensus       688 rltDs~Gr~Vd~kN~I~IMTsn~  710 (898)
T KOG1051|consen  688 RLTDSHGREVDFKNAIFIMTSNV  710 (898)
T ss_pred             ccccCCCcEeeccceEEEEeccc
Confidence            21111       34799999884

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=98.24  E-value=1e-05  Score=87.00  Aligned_cols=146  Identities=16%  Similarity=0.197  Sum_probs=90.3

Q ss_pred             cccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHH-HHHh----
Q 037859          209 DTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRS-LLID----  274 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~-l~~~----  274 (504)
                      ..+++.....+.+...+      ...+|+.|++|||||++|+++....   +.+++.++|..+.. ..+.. +|..    
T Consensus       138 ~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~-~~~~~~lfg~~~g~  216 (469)
T PRK10923        138 TDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPK-DLIESELFGHEKGA  216 (469)
T ss_pred             ccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCH-HHHHHHhcCCCCCC
Confidence            34455444444444443      4569999999999999999998876   46899999998843 33333 3221    


Q ss_pred             -------------ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          275 -------------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       275 -------------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                                   ...+..|||||||.+-                                   ......|+..++.-.-
T Consensus       217 ~~~~~~~~~g~~~~a~~Gtl~l~~i~~l~-----------------------------------~~~q~~L~~~l~~~~~  261 (469)
T PRK10923        217 FTGANTIRQGRFEQADGGTLFLDEIGDMP-----------------------------------LDVQTRLLRVLADGQF  261 (469)
T ss_pred             CCCCCcCCCCCeeECCCCEEEEeccccCC-----------------------------------HHHHHHHHHHHhcCcE
Confidence                         2245689999999862                                   2244456666543210


Q ss_pred             -c------CCCceEEEEecCCC-------CCCChhhhcCCCc-eeEEEecCC--CHHHHHHHHHHhcC
Q 037859          342 -A------SGEERIIVFTTNYV-------DKLDPALIRRGRM-DKHIEMSYC--CFEAFKVLAKNYLD  392 (504)
Q Consensus       342 -~------~~~~~ivI~tTN~~-------e~Ld~ALlRpGR~-d~~I~~~~p--~~e~~~~i~~~~l~  392 (504)
                       .      ....+-+|+||+..       ..+.+.|..  |+ ..+|.+|..  ..++...|+..|+.
T Consensus       262 ~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~~~~~L~~--~l~~~~i~~PpLreR~~Di~~l~~~~l~  327 (469)
T PRK10923        262 YRVGGYAPVKVDVRIIAATHQNLEQRVQEGKFREDLFH--RLNVIRVHLPPLRERREDIPRLARHFLQ  327 (469)
T ss_pred             EeCCCCCeEEeeEEEEEeCCCCHHHHHHcCCchHHHHH--HhcceeecCCCcccchhhHHHHHHHHHH
Confidence             0      01124577777642       346677777  77 456666654  34566677777763

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.21  E-value=5.3e-06  Score=90.81  Aligned_cols=120  Identities=18%  Similarity=0.169  Sum_probs=84.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCC--cEEEEeccc----cCChHHHHHHHHh-----------ccCCeEEEEeccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNY--DVYDLELTT----VQDNSELRSLLID-----------TSSKSILVIEDIDCS  289 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l~~~~----~~~~~~l~~l~~~-----------~~~~~Il~iDeiD~~  289 (504)
                      .|+|+-|++|||||+++++++..+..  ++..+-.+.    +.+.-+|...+..           ...+.||||||+..+
T Consensus        26 gGv~i~g~~G~~ks~~~r~l~~llp~~~p~r~~p~~~t~~~L~Gg~Dl~~~l~~g~~~~~pGlla~Ah~GvL~lDe~n~~  105 (584)
T PRK13406         26 GGVVLRARAGPVRDRWLAALRALLPAGTPLRRLPPGIADDRLLGGLDLAATLRAGRPVAQRGLLAEADGGVLVLAMAERL  105 (584)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhcCCCCCcccCCCCCcHHHccCCchHHhHhhcCCcCCCCCceeeccCCEEEecCcccC
Confidence            68999999999999999999999854  666554332    1222333333321           235689999999875


Q ss_pred             ccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhc---------CccccCCCceEEEEecCCC---C
Q 037859          290 LDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID---------GLWSASGEERIIVFTTNYV---D  357 (504)
Q Consensus       290 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD---------g~~~~~~~~~ivI~tTN~~---e  357 (504)
                                                         ...+++.|+..|+         |..-......++|+|-|..   +
T Consensus       106 -----------------------------------~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~  150 (584)
T PRK13406        106 -----------------------------------EPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDE  150 (584)
T ss_pred             -----------------------------------CHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhccc
Confidence                                               3458888998885         2222223345677765533   5


Q ss_pred             CCChhhhcCCCceeEEEecCCCHHHH
Q 037859          358 KLDPALIRRGRMDKHIEMSYCCFEAF  383 (504)
Q Consensus       358 ~Ld~ALlRpGR~d~~I~~~~p~~e~~  383 (504)
                      .|+++|+.  ||+++|.+++++..+.
T Consensus       151 ~L~~~lLD--Rf~l~v~v~~~~~~~~  174 (584)
T PRK13406        151 RAPAALAD--RLAFHLDLDGLALRDA  174 (584)
T ss_pred             CCCHHhHh--heEEEEEcCCCChHHh
Confidence            69999999  9999999999987654

>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=98.20  E-value=1.7e-06  Score=89.48  Aligned_cols=93  Identities=17%  Similarity=0.383  Sum_probs=58.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC------cEEEE--ec----cccC-ChHHHHHHHHhccCC-eEEEEeccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY------DVYDL--EL----TTVQ-DNSELRSLLIDTSSK-SILVIEDIDCSLD  291 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~------~i~~l--~~----~~~~-~~~~l~~l~~~~~~~-~Il~iDeiD~~~~  291 (504)
                      ++|++||||+|+|||+|.-...+.+..      ++...  +.    .... ...-+..+.....+. .+|+|||+..-  
T Consensus        62 ~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~vh~~l~~~~~~~~~l~~va~~l~~~~~lLcfDEF~V~--  139 (362)
T PF03969_consen   62 PKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLRGQDDPLPQVADELAKESRLLCFDEFQVT--  139 (362)
T ss_pred             CceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHhCCCccHHHHHHHHHhcCCEEEEeeeecc--
Confidence            799999999999999999999887643      11110  00    0001 112233333333444 49999999862  


Q ss_pred             ccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCC
Q 037859          292 LTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYV  356 (504)
Q Consensus       292 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~  356 (504)
                                                    +......+..|+..+   +   ..++++|+|+|++
T Consensus       140 ------------------------------DiaDAmil~rLf~~l---~---~~gvvlVaTSN~~  168 (362)
T PF03969_consen  140 ------------------------------DIADAMILKRLFEAL---F---KRGVVLVATSNRP  168 (362)
T ss_pred             ------------------------------chhHHHHHHHHHHHH---H---HCCCEEEecCCCC
Confidence                                          122456777777765   1   2458999999964

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

>PF08740 BCS1_N: BCS1 N terminal; InterPro: IPR014851 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=98.18  E-value=6.5e-05  Score=70.58  Aligned_cols=130  Identities=16%  Similarity=0.265  Sum_probs=77.7

Q ss_pred             CccHHHHHHHHHHhcc-cCCCCCceEEEeeCCCCc----------------------eEEEecCCCceeeeecCeEEEEE
Q 037859           65 KRSEAFSAIQNYLSTT-ASLHATRFKADVVKDSQS----------------------IVLSMDDRQEVTDEFKGIKVWWV  121 (504)
Q Consensus        65 ~~n~~y~~~~~~ls~~-~~~~~~~l~~~~~~~~~~----------------------~~~~~~~~~~v~d~f~g~~~~w~  121 (504)
                      ..|++|++++.||+++ ....++++.+.+...+..                      +.+.-..+ .-.--|+|..++..
T Consensus        33 ~~D~~Y~~lm~Wls~q~~~~~~r~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~G-~h~F~y~G~~~~~~  111 (187)
T PF08740_consen   33 SDDEAYDWLMRWLSSQPFSKRSRHLSATTRSNSSWDDDESDDEDSWDTNTSDDKKKPIRFTPSPG-THWFWYKGRWFWFS  111 (187)
T ss_pred             CCCHHHHHHHHHHhhCCcccccceeEEEeecccccccccccccchhccccccCCcCCeEEEeCCC-CEEEEECCEEEEEE
Confidence            3799999999999984 566789999888543210                      11111111 11112344333222


Q ss_pred             EeeecCCCCcccccCCCCCeeEEEEEEecccchhhhhhhHHHHHhhhhhHHhhhccce--ecccCCCCCccCccCcccee
Q 037859          122 LGKNIPKTQSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGGKAITVKNRQRK--LYSNNPSKNWYGWRSTKWSH  199 (504)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~yl~~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~w~~  199 (504)
                      ...   +....+...+ .+.+.++|++..+.++.     |+.+|++|++...++.+.+  ||.+.+..       ..|..
T Consensus       112 R~~---~~~~~~~~~~-~~~e~l~l~~lg~s~~~-----l~~ll~ear~~~~~~~~~~t~Iy~~~~~~-------~~W~~  175 (187)
T PF08740_consen  112 RQR---ESNSYNSWTG-APDETLTLSCLGRSPKP-----LKDLLEEAREYYLKKQKGKTTIYRADGSE-------YRWRR  175 (187)
T ss_pred             EEe---ccccccccCC-CCceEEEEEEecCCHHH-----HHHHHHHHHHHHHHhcCCcEEEEeCCCCC-------CCCcC
Confidence            222   1111111111 23578888888887764     5899999999998776554  78776432       14877


Q ss_pred             eecCCCcccccc
Q 037859          200 VFFEHPATFDTL  211 (504)
Q Consensus       200 ~~~~~p~~f~~~  211 (504)
                      +.-..++++++|
T Consensus       176 ~~~r~~RplsTV  187 (187)
T PF08740_consen  176 VASRPKRPLSTV  187 (187)
T ss_pred             CCCcCCCCCCCC
Confidence            777778888875

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) []. This domain is found at the N terminus of the mitochondrial BSC1 subfamily, belonging to the AAA ATPase family. At2g21640 and BCS1 are both highly stress responsive genes which encode mitochondrial proteins. The promoter of BCS1 was not responsive to H2O2 or rotenone, but highly responsive to salicylic acid (SA). The SA dependent pathway represented by BCS1 is one of at least three distinctive pathways to regulate mitochondrial stress response at a transcriptional level []. The BCS1 product is a mitochondrial protein required for the assembly of respiratory complex III []. BCS1, a component of the inner membrane of mitochondria, belongs to the group of proteins with internal, noncleavable import signals. It has a transmembrane domain (amino acid residues 51 to 68), a presequence type helix (residues 69 to 83), and an import auxiliary region (residues 84 to 126) [].

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.16  E-value=1.3e-05  Score=85.56  Aligned_cols=63  Identities=19%  Similarity=0.261  Sum_probs=47.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHH-HHh-----------------ccCCeEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSL-LID-----------------TSSKSILVIE  284 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l-~~~-----------------~~~~~Il~iD  284 (504)
                      ...++++|++||||+.+|+++....   +.+++.++|..+.. ..+... |..                 ...+..||||
T Consensus       162 ~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~-~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~  240 (445)
T TIGR02915       162 DITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPE-NLLESELFGYEKGAFTGAVKQTLGKIEYAHGGTLFLD  240 (445)
T ss_pred             CCCEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCCh-HHHHHHhcCCCCCCcCCCccCCCCceeECCCCEEEEe
Confidence            4568999999999999999997765   46899999998743 333332 221                 1346789999


Q ss_pred             ccccc
Q 037859          285 DIDCS  289 (504)
Q Consensus       285 eiD~~  289 (504)
                      |||.+
T Consensus       241 ~i~~l  245 (445)
T TIGR02915       241 EIGDL  245 (445)
T ss_pred             chhhC
Confidence            99986

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).

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.15  E-value=1.9e-05  Score=84.75  Aligned_cols=129  Identities=20%  Similarity=0.211  Sum_probs=82.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHHH-H-----------------hccCCeEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSLL-I-----------------DTSSKSILVIE  284 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~-~-----------------~~~~~~Il~iD  284 (504)
                      ...+++.|.+||||+++|+++....   +.+++.++|..+.. ..+...+ .                 ....+..||||
T Consensus       157 ~~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~-~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~  235 (463)
T TIGR01818       157 DITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPK-DLIESELFGHEKGAFTGANTRRQGRFEQADGGTLFLD  235 (463)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCH-HHHHHHhcCCCCCCCCCcccCCCCcEEECCCCeEEEE
Confidence            5568999999999999999998764   46899999998743 3333332 2                 12346789999


Q ss_pred             cccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc-cc------CCCceEEEEecCCC-
Q 037859          285 DIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW-SA------SGEERIIVFTTNYV-  356 (504)
Q Consensus       285 eiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~-~~------~~~~~ivI~tTN~~-  356 (504)
                      |||.+-                                   ......|+..++.-. ..      ...++-+|+|||.. 
T Consensus       236 ei~~l~-----------------------------------~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l  280 (463)
T TIGR01818       236 EIGDMP-----------------------------------LDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNL  280 (463)
T ss_pred             chhhCC-----------------------------------HHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCH
Confidence            999861                                   223455665554211 00      01134577777643 


Q ss_pred             ------CCCChhhhcCCCce-eEEEecCCC--HHHHHHHHHHhcC
Q 037859          357 ------DKLDPALIRRGRMD-KHIEMSYCC--FEAFKVLAKNYLD  392 (504)
Q Consensus       357 ------e~Ld~ALlRpGR~d-~~I~~~~p~--~e~~~~i~~~~l~  392 (504)
                            ..+.+.|..  |+. .+|++|...  .++...++..|+.
T Consensus       281 ~~~~~~~~f~~~L~~--rl~~~~i~lPpLr~R~~Di~~l~~~~l~  323 (463)
T TIGR01818       281 EALVRQGKFREDLFH--RLNVIRIHLPPLRERREDIPRLARHFLA  323 (463)
T ss_pred             HHHHHcCCcHHHHHH--HhCcceecCCCcccchhhHHHHHHHHHH
Confidence                  234456665  554 467777654  5777788888773

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.

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=98.15  E-value=1.5e-05  Score=85.32  Aligned_cols=63  Identities=21%  Similarity=0.294  Sum_probs=47.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHH-HHHh-----------------ccCCeEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRS-LLID-----------------TSSKSILVIE  284 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~-l~~~-----------------~~~~~Il~iD  284 (504)
                      ...+|++|++||||+++|+++....   +.+++.++|..+.. ..+.. +|..                 .....+||||
T Consensus       166 ~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~-~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~ld  244 (457)
T PRK11361        166 QASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPE-SLLESELFGHEKGAFTGAQTLRQGLFERANEGTLLLD  244 (457)
T ss_pred             CcEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCH-HHHHHHhcCCCCCCCCCCCCCCCCceEECCCCEEEEe
Confidence            4569999999999999999997654   56899999998853 22332 2221                 1245799999


Q ss_pred             ccccc
Q 037859          285 DIDCS  289 (504)
Q Consensus       285 eiD~~  289 (504)
                      |||.+
T Consensus       245 ~i~~l  249 (457)
T PRK11361        245 EIGEM  249 (457)
T ss_pred             chhhC
Confidence            99986

>PHA02624 large T antigen; Provisional

Probab=98.14  E-value=6.6e-06  Score=88.68  Aligned_cols=121  Identities=20%  Similarity=0.261  Sum_probs=76.5

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCeEEEEeccccccccccccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDED  305 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~  305 (504)
                      ++.+|||||||||||+++.+|++.++-.+..++...    +.+.--+.-+...-+.+|||+-.-+-   ...        
T Consensus       431 k~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVNsPt----~ks~FwL~pl~D~~~~l~dD~t~~~~---~~~--------  495 (647)
T PHA02624        431 RRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPP----DKLNFELGCAIDQFMVVFEDVKGQPA---DNK--------  495 (647)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCeEEEeeCCc----chhHHHhhhhhhceEEEeeecccccc---ccc--------
Confidence            457999999999999999999999965555555332    23333444455678999999964220   000        


Q ss_pred             ccccCcccccccccCCCcchhhHHHHHhhhhcCccccC-----CCce-----EEEEecCCCCCCChhhhcCCCceeEEEe
Q 037859          306 KEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS-----GEER-----IIVFTTNYVDKLDPALIRRGRMDKHIEM  375 (504)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~-----~~~~-----ivI~tTN~~e~Ld~ALlRpGR~d~~I~~  375 (504)
                                   .-..+..-..+..|-|.|||-...+     ...+     -+|.|||. ..||..|.-  ||-.++.|
T Consensus       496 -------------~Lp~G~~~dNl~~lRn~LDG~V~v~ld~KH~n~~q~~~PPlliT~Ne-y~iP~T~~~--Rf~~~~~F  559 (647)
T PHA02624        496 -------------DLPSGQGMNNLDNLRDYLDGSVPVNLEKKHLNKRSQIFPPGIVTMNE-YLIPQTVKA--RFAKVLDF  559 (647)
T ss_pred             -------------cCCcccccchhhHHHhhcCCCCccccchhccCchhccCCCeEEeecC-cccchhHHH--HHHHhccc
Confidence                         0000111223567888899861110     0111     36789986 467888888  99888887


Q ss_pred             cC
Q 037859          376 SY  377 (504)
Q Consensus       376 ~~  377 (504)
                      ..
T Consensus       560 ~~  561 (647)
T PHA02624        560 KP  561 (647)
T ss_pred             cc
Confidence            54

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

Probab=98.12  E-value=2.4e-05  Score=78.04  Aligned_cols=65  Identities=18%  Similarity=0.313  Sum_probs=44.4

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---------CCcEEEEeccccCChHHHHH-HHH----------------------
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---------NYDVYDLELTTVQDNSELRS-LLI----------------------  273 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~~~~~~~l~~-l~~----------------------  273 (504)
                      ..++||+|++|.|||++++..+...         ..|++.+....--+...+-. ++.                      
T Consensus        61 mp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~l  140 (302)
T PF05621_consen   61 MPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYRPRDRVAKLEQQVLRL  140 (302)
T ss_pred             CCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccCCCCCHHHHHHHHHHH
Confidence            3579999999999999999998644         24677777654433332211 111                      


Q ss_pred             -hccCCeEEEEecccccc
Q 037859          274 -DTSSKSILVIEDIDCSL  290 (504)
Q Consensus       274 -~~~~~~Il~iDeiD~~~  290 (504)
                       ..-+.-+|+|||++.++
T Consensus       141 lr~~~vrmLIIDE~H~lL  158 (302)
T PF05621_consen  141 LRRLGVRMLIIDEFHNLL  158 (302)
T ss_pred             HHHcCCcEEEeechHHHh
Confidence             11255699999999975

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

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=98.12  E-value=8.1e-05  Score=78.97  Aligned_cols=152  Identities=20%  Similarity=0.225  Sum_probs=96.9

Q ss_pred             cCCCccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHH-HH
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELR-SL  271 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~-~l  271 (504)
                      +.+.-+|+++++......++++.+      .-.+|+.|.+||||..+|++|=+..   +-|++.+||..+-.. -|. .+
T Consensus       238 ~~a~y~f~~Iig~S~~m~~~~~~akr~A~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe~-LlESEL  316 (560)
T COG3829         238 LKAKYTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPET-LLESEL  316 (560)
T ss_pred             cccccchhhhccCCHHHHHHHHHHHhhcCCCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccCCHH-HHHHHH
Confidence            455667899998888777777766      4559999999999999999997655   679999999988321 111 12


Q ss_pred             HH-------h-----------ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHh
Q 037859          272 LI-------D-----------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLL  333 (504)
Q Consensus       272 ~~-------~-----------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL  333 (504)
                      |.       .           .++..-||+|||-.+                                   +......||
T Consensus       317 FGye~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgem-----------------------------------pl~LQaKLL  361 (560)
T COG3829         317 FGYEKGAFTGASKGGKPGLFELANGGTLFLDEIGEM-----------------------------------PLPLQAKLL  361 (560)
T ss_pred             hCcCCccccccccCCCCcceeeccCCeEEehhhccC-----------------------------------CHHHHHHHH
Confidence            21       1           134567999999764                                   234566777


Q ss_pred             hhhcC-------ccccCCCceEEEEecCCC-------CCCChhhhcCCCceeEEEecCC----CHHHHHHHHHHhcC
Q 037859          334 NFIDG-------LWSASGEERIIVFTTNYV-------DKLDPALIRRGRMDKHIEMSYC----CFEAFKVLAKNYLD  392 (504)
Q Consensus       334 ~~lDg-------~~~~~~~~~ivI~tTN~~-------e~Ld~ALlRpGR~d~~I~~~~p----~~e~~~~i~~~~l~  392 (504)
                      ..|..       -.....-.+-||+|||..       ..+-..|.-  |+. .+.+..|    ..+....|+..|+.
T Consensus       362 RVLQEkei~rvG~t~~~~vDVRIIAATN~nL~~~i~~G~FReDLYY--RLN-V~~i~iPPLReR~eDI~~L~~~Fl~  435 (560)
T COG3829         362 RVLQEKEIERVGGTKPIPVDVRIIAATNRNLEKMIAEGTFREDLYY--RLN-VIPITIPPLRERKEDIPLLAEYFLD  435 (560)
T ss_pred             HHHhhceEEecCCCCceeeEEEEEeccCcCHHHHHhcCcchhhhee--eec-eeeecCCCcccCcchHHHHHHHHHH
Confidence            76642       111223446799999963       223333433  442 3344444    34555556666653

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.09  E-value=4.2e-05  Score=86.21  Aligned_cols=181  Identities=18%  Similarity=0.284  Sum_probs=111.4

Q ss_pred             ccccccC-hhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCC--------
Q 037859          208 FDTLAME-TKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQD--------  264 (504)
Q Consensus       208 f~~~~~~-~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~--------  264 (504)
                      ++.+++. ++..+++++-+    ++.-+|.|.||+|||.++.-+|...          +..++.+++..+..        
T Consensus       185 ldPvigr~deeirRvi~iL~Rrtk~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~aGa~~rge~  264 (898)
T KOG1051|consen  185 LDPVIGRHDEEIRRVIEILSRKTKNNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVAGAKRRGEF  264 (898)
T ss_pred             CCCccCCchHHHHHHHHHHhccCCCCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhcccCcccchHH
Confidence            5566665 66677777777    6789999999999999999999865          45677777765422        


Q ss_pred             hHHHHHHHHh---ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          265 NSELRSLLID---TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       265 ~~~l~~l~~~---~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                      ..++..+..+   .....||||||++.+..   ..                         .........++|..+-+   
T Consensus       265 E~rlk~l~k~v~~~~~gvILfigelh~lvg---~g-------------------------~~~~~~d~~nlLkp~L~---  313 (898)
T KOG1051|consen  265 EERLKELLKEVESGGGGVILFLGELHWLVG---SG-------------------------SNYGAIDAANLLKPLLA---  313 (898)
T ss_pred             HHHHHHHHHHHhcCCCcEEEEecceeeeec---CC-------------------------CcchHHHHHHhhHHHHh---
Confidence            2345555543   44678999999999752   11                         11123344455554422   


Q ss_pred             cCCCceEEEEecCCCCC-----CChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc--CCcchHHHHhcCccCCCCCHH
Q 037859          342 ASGEERIIVFTTNYVDK-----LDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI--DSHELYAVIESMPAETNMTPA  414 (504)
Q Consensus       342 ~~~~~~ivI~tTN~~e~-----Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~--~~~~~~~~i~~l~~~~~~s~a  414 (504)
                        .++.-+|+||...+.     -||||-|  ||+ -+.++.|+.+....|+......  .+|........+.....++..
T Consensus       314 --rg~l~~IGatT~e~Y~k~iekdPalEr--rw~-l~~v~~pS~~~~~~iL~~l~~~~e~~hg~~~s~~a~~~a~~~s~~  388 (898)
T KOG1051|consen  314 --RGGLWCIGATTLETYRKCIEKDPALER--RWQ-LVLVPIPSVENLSLILPGLSERYEVHHGVRISDESLFSAAQLSAR  388 (898)
T ss_pred             --cCCeEEEecccHHHHHHHHhhCcchhh--Ccc-eeEeccCcccchhhhhhhhhhhhccccCCcccccccccccchhhh
Confidence              233678886653221     3899999  997 5778999877655555443322  112222222333333456666


Q ss_pred             HHHHhhCCCC
Q 037859          415 DVAENLMPKC  424 (504)
Q Consensus       415 ~i~~~l~~~~  424 (504)
                      ++...+++.|
T Consensus       389 ~~t~r~lpd~  398 (898)
T KOG1051|consen  389 YITLSFLPDC  398 (898)
T ss_pred             hcccCcCchh
Confidence            6666666544

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=98.07  E-value=1.6e-06  Score=88.96  Aligned_cols=146  Identities=22%  Similarity=0.218  Sum_probs=79.7

Q ss_pred             cccChhHHHHHHHhh--------c-----c---cccccCCCCCcHHHHHHHHHHhcCCcEEEEeccc----c-----CC-
Q 037859          211 LAMETKKKEEIKKDL--------K-----K---GYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT----V-----QD-  264 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l--------~-----r---g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~----~-----~~-  264 (504)
                      +.+.+..|..|+-.+        +     |   .+||.|.||||||.|.+.++......+|.---+.    +     .+ 
T Consensus        26 i~g~~~iK~aill~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~pr~v~~~g~~~s~~gLta~~~~d~  105 (331)
T PF00493_consen   26 IYGHEDIKKAILLQLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLAPRSVYTSGKGSSAAGLTASVSRDP  105 (331)
T ss_dssp             TTT-HHHHHHHCCCCTT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-SSEEEEECCGSTCCCCCEEECCCG
T ss_pred             CcCcHHHHHHHHHHHHhccccccccccccccccceeeccchhhhHHHHHHHHHhhCCceEEECCCCcccCCccceecccc
Confidence            345566676666555        1     2   3899999999999999998776655555331110    1     11 


Q ss_pred             ---hHHHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc--
Q 037859          265 ---NSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL--  339 (504)
Q Consensus       265 ---~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~--  339 (504)
                         +-.+..-..-...+.|++|||+|.+-                                   ......|+..|+.-  
T Consensus       106 ~~~~~~leaGalvlad~GiccIDe~dk~~-----------------------------------~~~~~~l~eaMEqq~i  150 (331)
T PF00493_consen  106 VTGEWVLEAGALVLADGGICCIDEFDKMK-----------------------------------EDDRDALHEAMEQQTI  150 (331)
T ss_dssp             GTSSECEEE-HHHHCTTSEEEECTTTT-------------------------------------CHHHHHHHHHHHCSCE
T ss_pred             ccceeEEeCCchhcccCceeeeccccccc-----------------------------------chHHHHHHHHHHcCee
Confidence               00011000112478999999999851                                   11344555555421  


Q ss_pred             -------cccCCCceEEEEecCCCC-------------CCChhhhcCCCceeEEEe-cCCCHHHHHHHHHHhcCc
Q 037859          340 -------WSASGEERIIVFTTNYVD-------------KLDPALIRRGRMDKHIEM-SYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       340 -------~~~~~~~~ivI~tTN~~e-------------~Ld~ALlRpGR~d~~I~~-~~p~~e~~~~i~~~~l~~  393 (504)
                             ...-.-..-|++|+|...             .++++|+.  |||..+.+ +.++.+.=..|+++.+..
T Consensus       151 si~kagi~~~l~ar~svlaa~NP~~g~~~~~~~~~~ni~l~~~LLS--RFDLif~l~D~~d~~~D~~la~~il~~  223 (331)
T PF00493_consen  151 SIAKAGIVTTLNARCSVLAAANPKFGRYDPNKSLSENINLPPPLLS--RFDLIFLLRDKPDEEEDERLAEHILDS  223 (331)
T ss_dssp             EECTSSSEEEEE---EEEEEE--TT--S-TTS-CGCCT-S-CCCHC--C-SEEECC--TTT-HHHHHHHHHHHTT
T ss_pred             ccchhhhcccccchhhhHHHHhhhhhhcchhhhhHHhcccchhhHh--hcCEEEEeccccccccccccceEEEec
Confidence                   110111235888888765             47899999  99988765 667777666777766643

; 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.

>PRK15115 response regulator GlrR; Provisional

Probab=98.06  E-value=2.8e-05  Score=83.01  Aligned_cols=63  Identities=21%  Similarity=0.298  Sum_probs=47.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHH-HHH-----------------hccCCeEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRS-LLI-----------------DTSSKSILVIE  284 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~-l~~-----------------~~~~~~Il~iD  284 (504)
                      ...++++|++||||+++|+++....   +.+++.++|..+.. ..+.. +|.                 +......||||
T Consensus       157 ~~~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~-~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~  235 (444)
T PRK15115        157 DVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPE-QLLESELFGHARGAFTGAVSNREGLFQAAEGGTLFLD  235 (444)
T ss_pred             CCeEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCH-HHHHHHhcCCCcCCCCCCccCCCCcEEECCCCEEEEE
Confidence            4568999999999999999998764   57899999998743 23332 222                 12345789999


Q ss_pred             ccccc
Q 037859          285 DIDCS  289 (504)
Q Consensus       285 eiD~~  289 (504)
                      |||.+
T Consensus       236 ~i~~l  240 (444)
T PRK15115        236 EIGDM  240 (444)
T ss_pred             ccccC
Confidence            99986

>PHA00729 NTP-binding motif containing protein

Probab=98.06  E-value=5.1e-06  Score=79.86  Aligned_cols=27  Identities=22%  Similarity=0.426  Sum_probs=23.6

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      ..++++||||||||++|.+||..++..
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l~~~   44 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDVFWK   44 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            358999999999999999999987643

>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=98.02  E-value=2.8e-05  Score=77.62  Aligned_cols=132  Identities=23%  Similarity=0.198  Sum_probs=70.0

Q ss_pred             HHHHHHHhh------cccccccCCCCCcHHHHHHHHHHh--c--CCc-EEEEeccccCChH-------------------
Q 037859          217 KKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANF--L--NYD-VYDLELTTVQDNS-------------------  266 (504)
Q Consensus       217 ~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~--l--~~~-i~~l~~~~~~~~~-------------------  266 (504)
                      .+++|.+.|      .+-+.++|++|+|||+||..+++.  .  .++ ++.+++....+..                   
T Consensus         4 ~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~   83 (287)
T PF00931_consen    4 EIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISD   83 (287)
T ss_dssp             HHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSC
T ss_pred             HHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccccccccccccccccccccccccccccccccccccccccccc
Confidence            345555555      334789999999999999999977  3  222 3344444321111                   


Q ss_pred             -----HHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          267 -----ELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       267 -----~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                           .+...+.+.  ..+++|+|||++...                                     .+..+...+-. 
T Consensus        84 ~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~-------------------------------------~~~~l~~~~~~-  125 (287)
T PF00931_consen   84 PKDIEELQDQLRELLKDKRCLLVLDDVWDEE-------------------------------------DLEELREPLPS-  125 (287)
T ss_dssp             CSSHHHHHHHHHHHHCCTSEEEEEEEE-SHH-------------------------------------HH-------HC-
T ss_pred             ccccccccccchhhhccccceeeeeeecccc-------------------------------------ccccccccccc-
Confidence                 111222111  358999999998631                                     22222222111 


Q ss_pred             cccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          340 WSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                         ...+.-||.||..... -..+-   .-+..++++..+.++-..++..+...
T Consensus       126 ---~~~~~kilvTTR~~~v-~~~~~---~~~~~~~l~~L~~~ea~~L~~~~~~~  172 (287)
T PF00931_consen  126 ---FSSGSKILVTTRDRSV-AGSLG---GTDKVIELEPLSEEEALELFKKRAGR  172 (287)
T ss_dssp             ---HHSS-EEEEEESCGGG-GTTHH---SCEEEEECSS--HHHHHHHHHHHHTS
T ss_pred             ---cccccccccccccccc-ccccc---cccccccccccccccccccccccccc
Confidence               1112345667754322 11111   11578999999999999999988654

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

>PLN03210 Resistant to P

Probab=98.01  E-value=3.8e-05  Score=91.34  Aligned_cols=55  Identities=16%  Similarity=0.250  Sum_probs=41.9

Q ss_pred             ceeeecCCCccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhcC
Q 037859          197 WSHVFFEHPATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       197 w~~~~~~~p~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      |..+....+..++.+++-+...+++...+      .+-+-++||+|+||||||+++++.+.
T Consensus       172 ~~~l~~~~~~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~  232 (1153)
T PLN03210        172 LGKLNLTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLS  232 (1153)
T ss_pred             HHhhccccCcccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHh
Confidence            33344455667888888887777777666      34578999999999999999988764

syringae 6; Provisional

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.00  E-value=3.2e-05  Score=81.65  Aligned_cols=61  Identities=34%  Similarity=0.535  Sum_probs=49.3

Q ss_pred             ccceeeecCCCccccccccChhHHHHHHHhh-----------cccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          195 TKWSHVFFEHPATFDTLAMETKKKEEIKKDL-----------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       195 ~~w~~~~~~~p~~f~~~~~~~~~k~~i~~~l-----------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ..|.  .-..|++.+.|+.......+|..++           .|-+||+||+|||||+.++.||.++|+.+..-
T Consensus        70 elW~--eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew  141 (634)
T KOG1970|consen   70 ELWV--EKYKPRTLEELAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEW  141 (634)
T ss_pred             chhH--HhcCcccHHHHhhhHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhhCceeeee
Confidence            3463  3346899999999988777777776           34478899999999999999999999887653

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=97.95  E-value=0.00013  Score=79.15  Aligned_cols=130  Identities=18%  Similarity=0.271  Sum_probs=80.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC----------CcEEEEeccccCChHH----------------------HHHHHH--
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN----------YDVYDLELTTVQDNSE----------------------LRSLLI--  273 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~----------~~i~~l~~~~~~~~~~----------------------l~~l~~--  273 (504)
                      .+.+.|-||||||.++..+-..|.          ++++.+|...+....+                      |...|.  
T Consensus       424 ~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~~  503 (767)
T KOG1514|consen  424 CMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEKIWEALSGERVTWDAALEALNFRFTVP  503 (767)
T ss_pred             eEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHHHHHhcccCcccHHHHHHHHHHhhccC
Confidence            467889999999999999988663          4455555544432221                      233333  


Q ss_pred             -hccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEe
Q 037859          274 -DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFT  352 (504)
Q Consensus       274 -~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~t  352 (504)
                       ....++||+|||.|.++.   +                             ++.++   -|++|-.. ..+...+||+.
T Consensus       504 k~~~~~~VvLiDElD~Lvt---r-----------------------------~QdVl---Yn~fdWpt-~~~sKLvvi~I  547 (767)
T KOG1514|consen  504 KPKRSTTVVLIDELDILVT---R-----------------------------SQDVL---YNIFDWPT-LKNSKLVVIAI  547 (767)
T ss_pred             CCCCCCEEEEeccHHHHhc---c-----------------------------cHHHH---HHHhcCCc-CCCCceEEEEe
Confidence             113579999999999752   1                             12244   44444322 33455677777


Q ss_pred             cCCCCCCChhhhcC---CCce-eEEEecCCCHHHHHHHHHHhcCcC
Q 037859          353 TNYVDKLDPALIRR---GRMD-KHIEMSYCCFEAFKVLAKNYLDID  394 (504)
Q Consensus       353 TN~~e~Ld~ALlRp---GR~d-~~I~~~~p~~e~~~~i~~~~l~~~  394 (504)
                      .|+.+. ++.++-+   -|++ ..|.|...+.++.++|+..-|..-
T Consensus       548 aNTmdl-PEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~  592 (767)
T KOG1514|consen  548 ANTMDL-PERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGL  592 (767)
T ss_pred             cccccC-HHHHhccchhhhccceeeecCCCCHHHHHHHHHHhhcch
Confidence            777654 4444321   1443 457788889999999998777543

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.93  E-value=3.3e-05  Score=79.99  Aligned_cols=62  Identities=27%  Similarity=0.401  Sum_probs=41.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc----C-CcEEEEecccc----------------------CChHHHHHHHHhccCCe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL----N-YDVYDLELTTV----------------------QDNSELRSLLIDTSSKS  279 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l----~-~~i~~l~~~~~----------------------~~~~~l~~l~~~~~~~~  279 (504)
                      .-++|+||+|+|||+++..||..+    | ..+..+.....                      .+..++...+.......
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~D  217 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNKH  217 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCCC
Confidence            348899999999999999999764    3 24444443332                      12234455555556778


Q ss_pred             EEEEecccc
Q 037859          280 ILVIEDIDC  288 (504)
Q Consensus       280 Il~iDeiD~  288 (504)
                      +|+||.+-.
T Consensus       218 lVLIDTaG~  226 (374)
T PRK14722        218 MVLIDTIGM  226 (374)
T ss_pred             EEEEcCCCC
Confidence            888887743

>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=97.93  E-value=3.1e-05  Score=73.25  Aligned_cols=115  Identities=17%  Similarity=0.189  Sum_probs=59.8

Q ss_pred             ccccCCCCCcHHHHHHHH-HHh---cCCcEEEEeccccC-----C--hH------------------HHHHHHHhccCCe
Q 037859          229 YLLYGPPGTGKSTMIAAM-ANF---LNYDVYDLELTTVQ-----D--NS------------------ELRSLLIDTSSKS  279 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~ai-A~~---l~~~i~~l~~~~~~-----~--~~------------------~l~~l~~~~~~~~  279 (504)
                      +|++|.||+|||..|-.. +..   -|.+++. +...+.     .  ..                  .-...+...+..+
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            578999999999987655 322   2666665 544221     0  00                  0112222334789


Q ss_pred             EEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCC
Q 037859          280 ILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKL  359 (504)
Q Consensus       280 Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~L  359 (504)
                      ||+|||+...++.....                         .......+ .+|..      ....+.-||++|-++..|
T Consensus        82 liviDEa~~~~~~r~~~-------------------------~~~~~~~~-~~l~~------hRh~g~diiliTQ~~~~i  129 (193)
T PF05707_consen   82 LIVIDEAQNFFPSRSWK-------------------------GKKVPEII-EFLAQ------HRHYGWDIILITQSPSQI  129 (193)
T ss_dssp             EEEETTGGGTSB---T--------------------------T----HHH-HGGGG------CCCTT-EEEEEES-GGGB
T ss_pred             EEEEECChhhcCCCccc-------------------------cccchHHH-HHHHH------hCcCCcEEEEEeCCHHHH
Confidence            99999999976421110                         01112223 33332      223446789999999999


Q ss_pred             ChhhhcCCCceeEEEecCC
Q 037859          360 DPALIRRGRMDKHIEMSYC  378 (504)
Q Consensus       360 d~ALlRpGR~d~~I~~~~p  378 (504)
                      |+.+++  .++.++.+..+
T Consensus       130 d~~ir~--lve~~~~~~k~  146 (193)
T PF05707_consen  130 DKFIRD--LVEYHYHCRKL  146 (193)
T ss_dssp             -HHHHC--CEEEEEEEEE-
T ss_pred             hHHHHH--HHheEEEEEee
Confidence            999987  99999987654

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.

>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=97.90  E-value=6.7e-06  Score=71.12  Aligned_cols=30  Identities=37%  Similarity=0.771  Sum_probs=27.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      |++.||||+||||+|+.+|..+|++++.++
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            678999999999999999999998877664

...

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=97.88  E-value=5.1e-05  Score=85.99  Aligned_cols=125  Identities=23%  Similarity=0.295  Sum_probs=86.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhc--------------------cCCeEEEEeccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDT--------------------SSKSILVIEDID  287 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~--------------------~~~~Il~iDeiD  287 (504)
                      .+|++||||.|||+.+.++|..+|+.++..|.+...+...+...+..+                    ....||++||+|
T Consensus       359 ~~l~~G~pGigKT~~~h~~~k~~g~~v~E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~devD  438 (871)
T KOG1968|consen  359 ALLLSGPPGIGKTTAAHKAAKELGFKVVEKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILMDEVD  438 (871)
T ss_pred             HHHhcCCCCCCchhhHhhhhhhcccceeecCccccccccHHHhhhhccccccchhhhhcccccccccccceeEEEEeccc
Confidence            368999999999999999999999999999998876665555544432                    113499999999


Q ss_pred             ccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCC
Q 037859          288 CSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRG  367 (504)
Q Consensus       288 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpG  367 (504)
                      .++.  +.|                           ..-.-++++.+.         ..+-+|+|+|.........+.  
T Consensus       439 ~~~~--~dR---------------------------g~v~~l~~l~~k---------s~~Piv~~cndr~~p~sr~~~--  478 (871)
T KOG1968|consen  439 GMFG--EDR---------------------------GGVSKLSSLCKK---------SSRPLVCTCNDRNLPKSRALS--  478 (871)
T ss_pred             cccc--hhh---------------------------hhHHHHHHHHHh---------ccCCeEEEecCCCCccccchh--
Confidence            8642  111                           111223344331         225689999987766553333  


Q ss_pred             CceeEEEecCCCHHHHHHHHHHhcC
Q 037859          368 RMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       368 R~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      |-+.-|+|+.|+.+.+..-+..++.
T Consensus       479 ~~~~~l~f~kP~~~~i~~ri~si~~  503 (871)
T KOG1968|consen  479 RACSDLRFSKPSSELIRSRIMSICK  503 (871)
T ss_pred             hhcceeeecCCcHHHHHhhhhhhhc
Confidence            3336689999999887776666654

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=97.88  E-value=8.4e-05  Score=80.23  Aligned_cols=77  Identities=27%  Similarity=0.399  Sum_probs=50.4

Q ss_pred             cChhHHHHHHHhh---------c-------ccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccc--------cCChHHH
Q 037859          213 METKKKEEIKKDL---------K-------KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT--------VQDNSEL  268 (504)
Q Consensus       213 ~~~~~k~~i~~~l---------~-------rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~--------~~~~~~l  268 (504)
                      ..++.|+.++-.|         +       -.+||+|.||||||-+.+.+++-+-..+|.---.+        +.-+.+-
T Consensus       433 e~edvKkglLLqLfGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVtrd~dt  512 (804)
T KOG0478|consen  433 ELEDVKKGLLLQLFGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVTKDPDT  512 (804)
T ss_pred             cccchhhhHHHHHhcCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchhcceeeEEecCcc
Confidence            4456677766666         2       23899999999999999999998866666421100        1111222


Q ss_pred             HHHHHhc-----cCCeEEEEeccccc
Q 037859          269 RSLLIDT-----SSKSILVIEDIDCS  289 (504)
Q Consensus       269 ~~l~~~~-----~~~~Il~iDeiD~~  289 (504)
                      ++++.+.     +...|-.|||+|.+
T Consensus       513 kqlVLesGALVLSD~GiCCIDEFDKM  538 (804)
T KOG0478|consen  513 RQLVLESGALVLSDNGICCIDEFDKM  538 (804)
T ss_pred             ceeeeecCcEEEcCCceEEchhhhhh
Confidence            3333332     46789999999996

>PHA02774 E1; Provisional

Probab=97.87  E-value=5.8e-05  Score=81.23  Aligned_cols=53  Identities=26%  Similarity=0.457  Sum_probs=38.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEE-EEeccccCChHHHHHHHHhccCCeEEEEecc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVY-DLELTTVQDNSELRSLLIDTSSKSILVIEDI  286 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~-~l~~~~~~~~~~l~~l~~~~~~~~Il~iDei  286 (504)
                      +.++||||||||||+++.+|++.++-.++ .++..+   .-    .+......-|++|||+
T Consensus       435 nciv~~GPP~TGKS~fa~sL~~~L~G~vi~fvN~~s---~F----wLqpl~d~ki~vlDD~  488 (613)
T PHA02774        435 NCLVIYGPPDTGKSMFCMSLIKFLKGKVISFVNSKS---HF----WLQPLADAKIALLDDA  488 (613)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCEEEEEECcc---cc----ccchhccCCEEEEecC
Confidence            56899999999999999999999975543 355321   11    1333345569999998

>PRK07261 topology modulation protein; Provisional

Probab=97.85  E-value=2.5e-05  Score=72.42  Aligned_cols=30  Identities=30%  Similarity=0.504  Sum_probs=26.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +++.|+||+||||+++.|+..++.+.+.+|
T Consensus         3 i~i~G~~GsGKSTla~~l~~~~~~~~i~~D   32 (171)
T PRK07261          3 IAIIGYSGSGKSTLARKLSQHYNCPVLHLD   32 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCeEecC
Confidence            688999999999999999999988877654

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.84  E-value=5.9e-05  Score=67.89  Aligned_cols=31  Identities=29%  Similarity=0.566  Sum_probs=25.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      ++++||||+|||+++..++..+   +.++..++.
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~   35 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDI   35 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEEC
Confidence            5789999999999999998877   455555544

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.

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=97.83  E-value=0.00012  Score=77.86  Aligned_cols=63  Identities=22%  Similarity=0.265  Sum_probs=47.6

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHHH-Hh-----------------ccCCeEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSLL-ID-----------------TSSKSILVIE  284 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~-~~-----------------~~~~~Il~iD  284 (504)
                      ...++++|.+||||+++++++-...   +.+++.++|..+.. ..+...+ ..                 ...+++||||
T Consensus       162 ~~~vli~ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~-~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~ld  240 (441)
T PRK10365        162 EATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNE-SLLESELFGHEKGAFTGADKRREGRFVEADGGTLFLD  240 (441)
T ss_pred             CCeEEEEecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCH-HHHHHHhcCCCCCCcCCCCcCCCCceeECCCCEEEEe
Confidence            4569999999999999999997654   57899999998753 3343332 21                 1246789999


Q ss_pred             ccccc
Q 037859          285 DIDCS  289 (504)
Q Consensus       285 eiD~~  289 (504)
                      |||.+
T Consensus       241 ei~~l  245 (441)
T PRK10365        241 EIGDI  245 (441)
T ss_pred             ccccC
Confidence            99986

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

Probab=97.83  E-value=0.00022  Score=74.32  Aligned_cols=150  Identities=16%  Similarity=0.183  Sum_probs=96.6

Q ss_pred             cccccChhHHHHHHHhh--------cccccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccccCChHHH-------
Q 037859          209 DTLAMETKKKEEIKKDL--------KKGYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDNSEL-------  268 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l--------~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~~~l-------  268 (504)
                      .++.+.+..+..+-+++        ...+.+.|-||||||.+..-+-..+     ....++++|.++.....+       
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~~~  229 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIFSS  229 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHHHH
Confidence            45566666666666666        5568899999999999888665444     235688899876433221       


Q ss_pred             --------------HHHHHh----ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHH
Q 037859          269 --------------RSLLID----TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLS  330 (504)
Q Consensus       269 --------------~~l~~~----~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls  330 (504)
                                    ...|..    ...+-++++||+|.++    .++                            +    
T Consensus       230 ~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~----tr~----------------------------~----  273 (529)
T KOG2227|consen  230 LLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLI----TRS----------------------------Q----  273 (529)
T ss_pred             HHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHh----hcc----------------------------c----
Confidence                          122221    1246799999999974    111                            1    


Q ss_pred             HHhhhhcCccccCCCceEEEEecCCCCCCChhhhc----CCCceeEEEecCCCHHHHHHHHHHhcCcC
Q 037859          331 GLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIR----RGRMDKHIEMSYCCFEAFKVLAKNYLDID  394 (504)
Q Consensus       331 ~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlR----pGR~d~~I~~~~p~~e~~~~i~~~~l~~~  394 (504)
                      +.|-.++.+....+..+|+|+..|..+.=|..|.|    -+--...+.|++.+.++..+|++.-+...
T Consensus       274 ~vLy~lFewp~lp~sr~iLiGiANslDlTdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~  341 (529)
T KOG2227|consen  274 TVLYTLFEWPKLPNSRIILIGIANSLDLTDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEE  341 (529)
T ss_pred             ceeeeehhcccCCcceeeeeeehhhhhHHHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcc
Confidence            11222333333344568899999988876666553    22234568899999999999998877543

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=97.77  E-value=0.00023  Score=75.32  Aligned_cols=147  Identities=16%  Similarity=0.201  Sum_probs=91.5

Q ss_pred             ccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHHHHh----
Q 037859          208 FDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSLLID----  274 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~~~----  274 (504)
                      +..+++.....+++...+      .-.+|++|++||||-.+|++|-..-   +.|++.+||..+-.+--=..+|..    
T Consensus       140 ~~~liG~S~am~~l~~~i~kvA~s~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~l~ESELFGhekGA  219 (464)
T COG2204         140 GGELVGESPAMQQLRRLIAKVAPSDASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPENLLESELFGHEKGA  219 (464)
T ss_pred             cCCceecCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHHHHHHHhhcccccC
Confidence            344566666666666665      5669999999999999999997665   459999999998533211224432    


Q ss_pred             -------------ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc-c
Q 037859          275 -------------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL-W  340 (504)
Q Consensus       275 -------------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~-~  340 (504)
                                   ......||||||..+                                   +......||..|..- .
T Consensus       220 FTGA~~~r~G~fE~A~GGTLfLDEI~~m-----------------------------------pl~~Q~kLLRvLqe~~~  264 (464)
T COG2204         220 FTGAITRRIGRFEQANGGTLFLDEIGEM-----------------------------------PLELQVKLLRVLQEREF  264 (464)
T ss_pred             cCCcccccCcceeEcCCceEEeeccccC-----------------------------------CHHHHHHHHHHHHcCee
Confidence                         135679999999775                                   223555666665411 1


Q ss_pred             c------cCCCceEEEEecCCC-------CCCChhhhcCCCceeEEEecCCC----HHHHHHHHHHhcC
Q 037859          341 S------ASGEERIIVFTTNYV-------DKLDPALIRRGRMDKHIEMSYCC----FEAFKVLAKNYLD  392 (504)
Q Consensus       341 ~------~~~~~~ivI~tTN~~-------e~Ld~ALlRpGR~d~~I~~~~p~----~e~~~~i~~~~l~  392 (504)
                      .      .-.-++-||+|||..       ..+-+.|.-  |+ -.+.+..|.    .+..--|+++|+.
T Consensus       265 ~rvG~~~~i~vdvRiIaaT~~dL~~~v~~G~FReDLyy--RL-nV~~i~iPpLRER~EDIp~L~~hfl~  330 (464)
T COG2204         265 ERVGGNKPIKVDVRIIAATNRDLEEEVAAGRFREDLYY--RL-NVVPLRLPPLRERKEDIPLLAEHFLK  330 (464)
T ss_pred             EecCCCcccceeeEEEeecCcCHHHHHHcCCcHHHHHh--hh-ccceecCCcccccchhHHHHHHHHHH
Confidence            0      111235689999853       233344555  55 245555553    4555567777763

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.75  E-value=2.1e-05  Score=84.50  Aligned_cols=57  Identities=23%  Similarity=0.379  Sum_probs=47.0

Q ss_pred             CCCccccccccChhHHHHHHHhh----------cccccccCCCCCcHHHHHHHHHHhc-CCcEEEEec
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----------KKGYLLYGPPGTGKSTMIAAMANFL-NYDVYDLEL  259 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----------~rg~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~~  259 (504)
                      .+...|+++.+.++.+++|++.+          ++-++|.||||+|||+|+++||+.+ .+++|.+..
T Consensus        70 ~ry~fF~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~~~~Y~~kg  137 (644)
T PRK15455         70 KRYPAFEEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMERVPIYVLKA  137 (644)
T ss_pred             ccccchhcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHhCcceeecC
Confidence            34445888889999999999988          4447899999999999999999987 467887754

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.74  E-value=0.00019  Score=68.05  Aligned_cols=49  Identities=33%  Similarity=0.535  Sum_probs=33.7

Q ss_pred             cChhHHHHHHHhh---cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccc
Q 037859          213 METKKKEEIKKDL---KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTT  261 (504)
Q Consensus       213 ~~~~~k~~i~~~l---~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  261 (504)
                      +.+++++.+...+   .+-.++.||||||||+++++++..+   +..++.+..+.
T Consensus         2 L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~   56 (196)
T PF13604_consen    2 LNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTN   56 (196)
T ss_dssp             S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSH
T ss_pred             CCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcH
Confidence            4566777776665   2347788999999999999987655   56677665543

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=97.69  E-value=0.00014  Score=71.61  Aligned_cols=48  Identities=23%  Similarity=0.194  Sum_probs=36.4

Q ss_pred             eEEEEecCC------------CCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcc
Q 037859          347 RIIVFTTNY------------VDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHE  397 (504)
Q Consensus       347 ~ivI~tTN~------------~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~  397 (504)
                      -++|++||+            |..+|-.|+.  |+ ..|...+.+.++.+.|++.-...++..
T Consensus       318 PiiimaTNrgit~iRGTn~~SphGiP~D~lD--R~-lII~t~py~~~d~~~IL~iRc~EEdv~  377 (454)
T KOG2680|consen  318 PIIIMATNRGITRIRGTNYRSPHGIPIDLLD--RM-LIISTQPYTEEDIKKILRIRCQEEDVE  377 (454)
T ss_pred             cEEEEEcCCceEEeecCCCCCCCCCcHHHhh--hh-heeecccCcHHHHHHHHHhhhhhhccc
Confidence            378888874            5678999999  98 678877778888888888776554433

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=97.67  E-value=0.00019  Score=82.92  Aligned_cols=144  Identities=18%  Similarity=0.221  Sum_probs=91.8

Q ss_pred             HHHHHhh---cccccccCCCCCcHHHH-HHHHHHhcCCcEEEEeccccCChHHHHHHHHhc-------------c----C
Q 037859          219 EEIKKDL---KKGYLLYGPPGTGKSTM-IAAMANFLNYDVYDLELTTVQDNSELRSLLIDT-------------S----S  277 (504)
Q Consensus       219 ~~i~~~l---~rg~LL~GPpGtGKTsl-a~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~-------------~----~  277 (504)
                      +.+..+.   .|||+++||||+|||++ .-++-+++-+++..++.+.-+..+.....+...             |    .
T Consensus      1484 ~~f~n~~lnt~R~~i~cGppGSgK~mlM~~sLrs~~~~ev~~~Nfs~~t~T~s~ls~Ler~t~yy~~tg~~~l~PK~~vK 1563 (3164)
T COG5245        1484 DSFSNEALNTLRSYIYCGPPGSGKEMLMCPSLRSELITEVKYFNFSTCTMTPSKLSVLERETEYYPNTGVVRLYPKPVVK 1563 (3164)
T ss_pred             HHHHHHHHhccceEEEECCCCCccchhcchhhhhhhheeeeEEeeccccCCHHHHHHHHhhceeeccCCeEEEccCcchh
Confidence            3444444   89999999999999994 668888899999999988776555444444332             1    2


Q ss_pred             CeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccC------CCceEEEE
Q 037859          278 KSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS------GEERIIVF  351 (504)
Q Consensus       278 ~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~------~~~~ivI~  351 (504)
                      .-|+|.|||..  +   ...                     .-.....-..+..|+ .-.|+|+..      -.++++.+
T Consensus      1564 ~lVLFcDeInL--p---~~~---------------------~y~~~~vI~FlR~l~-e~QGfw~s~~~~wvTI~~i~l~G 1616 (3164)
T COG5245        1564 DLVLFCDEINL--P---YGF---------------------EYYPPTVIVFLRPLV-ERQGFWSSIAVSWVTICGIILYG 1616 (3164)
T ss_pred             heEEEeeccCC--c---ccc---------------------ccCCCceEEeeHHHH-HhcccccchhhhHhhhcceEEEc
Confidence            35899999983  1   100                     000010111111222 224566432      13478889


Q ss_pred             ecCCCCC-----CChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          352 TTNYVDK-----LDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       352 tTN~~e~-----Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ++|.+..     .+..++|  |- ..|.+.||......+|.+.++.
T Consensus      1617 acnp~td~gRv~~~eRf~r--~~-v~vf~~ype~~SL~~Iyea~l~ 1659 (3164)
T COG5245        1617 ACNPGTDEGRVKYYERFIR--KP-VFVFCCYPELASLRNIYEAVLM 1659 (3164)
T ss_pred             cCCCCCCcccCccHHHHhc--Cc-eEEEecCcchhhHHHHHHHHHH
Confidence            9998754     2356666  43 6788999999988888887763

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.66  E-value=3e-05  Score=71.33  Aligned_cols=33  Identities=36%  Similarity=0.472  Sum_probs=29.6

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +..++|+||||||||++++++|..++.++++.+
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~~~~~d~d   36 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLGYDFIDTD   36 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            457899999999999999999999999888654

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=97.66  E-value=5.5e-05  Score=83.35  Aligned_cols=78  Identities=23%  Similarity=0.387  Sum_probs=50.5

Q ss_pred             cccChhHHHHHHHhh--------c-----cc---ccccCCCCCcHHHHHHHHHHhcCCcEEEEec-cc---c-----CCh
Q 037859          211 LAMETKKKEEIKKDL--------K-----KG---YLLYGPPGTGKSTMIAAMANFLNYDVYDLEL-TT---V-----QDN  265 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l--------~-----rg---~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~-~~---~-----~~~  265 (504)
                      +-+.+.+|+.|+-.+        +     ||   +||.|-||||||.|.+.+++.+-..+|.--- ++   +     .+.
T Consensus       288 IyG~e~VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aPr~vytsgkgss~~GLTAav~rd~  367 (682)
T COG1241         288 IYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAPRGVYTSGKGSSAAGLTAAVVRDK  367 (682)
T ss_pred             ccCcHHHHHHHHHHhcCCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCCceEEEccccccccCceeEEEEcc
Confidence            446666777777666        2     33   8999999999999999999988777664211 11   1     110


Q ss_pred             HHHHHHHHhc-----cCCeEEEEeccccc
Q 037859          266 SELRSLLIDT-----SSKSILVIEDIDCS  289 (504)
Q Consensus       266 ~~l~~l~~~~-----~~~~Il~iDeiD~~  289 (504)
                      . .-....++     ..+.|..|||+|.+
T Consensus       368 ~-tge~~LeaGALVlAD~Gv~cIDEfdKm  395 (682)
T COG1241         368 V-TGEWVLEAGALVLADGGVCCIDEFDKM  395 (682)
T ss_pred             C-CCeEEEeCCEEEEecCCEEEEEeccCC
Confidence            0 00111111     47899999999975

>PRK08118 topology modulation protein; Reviewed

Probab=97.66  E-value=6.1e-05  Score=69.60  Aligned_cols=33  Identities=33%  Similarity=0.472  Sum_probs=29.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEecc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLELT  260 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  260 (504)
                      .++++||||+||||+|+.|++.++.+++.++.-
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l   35 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDAL   35 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchh
Confidence            478999999999999999999999999888743

>PRK13947 shikimate kinase; Provisional

Probab=97.52  E-value=6.5e-05  Score=69.19  Aligned_cols=32  Identities=31%  Similarity=0.418  Sum_probs=29.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      .++|.|+||||||++++.+|..+++++++.+.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~d~   34 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDTDK   34 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCEEECch
Confidence            47899999999999999999999999988764

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.51  E-value=0.00028  Score=67.24  Aligned_cols=33  Identities=27%  Similarity=0.493  Sum_probs=27.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTT  261 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  261 (504)
                      ++++||||||||+++..+|...   +..+++++...
T Consensus        15 ~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~   50 (209)
T TIGR02237        15 TQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG   50 (209)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            7899999999999999887543   66788887764

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

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=97.51  E-value=0.00035  Score=73.37  Aligned_cols=84  Identities=17%  Similarity=0.294  Sum_probs=62.2

Q ss_pred             ccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCCh---HHH----H
Q 037859          206 ATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDN---SEL----R  269 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~---~~l----~  269 (504)
                      ..+..+++......++++.+      .-.+||.|.+||||..+|+||=...   +.|++.+||..+-.+   ++|    +
T Consensus       220 ~~~~~iIG~S~am~~ll~~i~~VA~Sd~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPesLlESELFGHeK  299 (550)
T COG3604         220 LEVGGIIGRSPAMRQLLKEIEVVAKSDSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPESLLESELFGHEK  299 (550)
T ss_pred             cccccceecCHHHHHHHHHHHHHhcCCCeEEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccchHHHHHHHhcccc
Confidence            34677888888888888877      5569999999999999999997655   678999999988422   222    1


Q ss_pred             HHHHhc----------cCCeEEEEeccccc
Q 037859          270 SLLIDT----------SSKSILVIEDIDCS  289 (504)
Q Consensus       270 ~l~~~~----------~~~~Il~iDeiD~~  289 (504)
                      ..|..+          ....-||+|||-.+
T Consensus       300 GAFTGA~~~r~GrFElAdGGTLFLDEIGel  329 (550)
T COG3604         300 GAFTGAINTRRGRFELADGGTLFLDEIGEL  329 (550)
T ss_pred             cccccchhccCcceeecCCCeEechhhccC
Confidence            122221          35678999999654

>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=97.50  E-value=4.2e-05  Score=68.01  Aligned_cols=27  Identities=44%  Similarity=0.689  Sum_probs=23.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      ++++||||+|||++|+.++..++..++
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~~~~i   28 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLGAVVI   28 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHSTEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCCEEE
Confidence            578999999999999999999984443

...

>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=97.50  E-value=7.1e-05  Score=67.43  Aligned_cols=30  Identities=33%  Similarity=0.449  Sum_probs=27.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      ++|+||||+|||++++.+|..+++++++.+
T Consensus         2 i~l~G~~GsGKstla~~la~~l~~~~~~~d   31 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALGLPFVDLD   31 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCEEEch
Confidence            689999999999999999999999988764

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.

>PRK00625 shikimate kinase; Provisional

Probab=97.49  E-value=7e-05  Score=69.57  Aligned_cols=31  Identities=32%  Similarity=0.592  Sum_probs=28.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      .++|.|+||+|||++++.+|..++++++++|
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~D   32 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDTD   32 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEhh
Confidence            3789999999999999999999999999876

>PRK03839 putative kinase; Provisional

Probab=97.49  E-value=6.8e-05  Score=69.86  Aligned_cols=30  Identities=37%  Similarity=0.623  Sum_probs=27.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      ++|.|+||+||||+++.+|+.+++++++++
T Consensus         3 I~l~G~pGsGKsT~~~~La~~~~~~~id~d   32 (180)
T PRK03839          3 IAITGTPGVGKTTVSKLLAEKLGYEYVDLT   32 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence            788999999999999999999999887653

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.49  E-value=7.2e-05  Score=72.01  Aligned_cols=23  Identities=43%  Similarity=0.853  Sum_probs=20.4

Q ss_pred             cccccccCCCCCcHHHHHHHHHH
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      +.-+|+||+||+|||++|+.+++
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcCC
Confidence            44599999999999999999975

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.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=97.46  E-value=8.7e-05  Score=71.10  Aligned_cols=38  Identities=39%  Similarity=0.743  Sum_probs=27.8

Q ss_pred             cChhHHHHHHHhhc-cc-ccccCCCCCcHHHHHHHHHHhc
Q 037859          213 METKKKEEIKKDLK-KG-YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       213 ~~~~~k~~i~~~l~-rg-~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +++.+++.|...+. .+ .++.||||||||+++.+++..+
T Consensus         2 ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    2 LNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             --HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHh
Confidence            46778888887774 44 7889999999998877776665

>PRK13949 shikimate kinase; Provisional

Probab=97.45  E-value=7.9e-05  Score=68.98  Aligned_cols=32  Identities=34%  Similarity=0.444  Sum_probs=29.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +.++|+||||+|||++++.+|+.+++++++++
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~~~~id~D   33 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELGLSFIDLD   33 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCCeeccc
Confidence            35889999999999999999999999988876

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=97.43  E-value=7.8e-05  Score=68.54  Aligned_cols=33  Identities=36%  Similarity=0.405  Sum_probs=30.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      +.+.|.|++|+||||+.+++|+.|++++++.|-
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D~   35 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPFIDTDQ   35 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCcccchH
Confidence            458899999999999999999999999998764

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.41  E-value=0.00063  Score=61.53  Aligned_cols=23  Identities=35%  Similarity=0.661  Sum_probs=20.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+.+.||||+|||+++.-+|..|
T Consensus         7 ki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           7 KIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             EEEEeCCCCccHHHHHHHHHHHH
Confidence            47889999999999999999876

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=97.38  E-value=0.00038  Score=68.82  Aligned_cols=80  Identities=21%  Similarity=0.288  Sum_probs=50.3

Q ss_pred             ccccChhHHHHHHHhh---------ccc--ccccCCCCCcHHHHHHHHHHhcCCcEEE----------EeccccCC----
Q 037859          210 TLAMETKKKEEIKKDL---------KKG--YLLYGPPGTGKSTMIAAMANFLNYDVYD----------LELTTVQD----  264 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l---------~rg--~LL~GPpGtGKTsla~aiA~~l~~~i~~----------l~~~~~~~----  264 (504)
                      .+.++.-.++.|+..+         ++.  +-|||+|||||+..++.||+.+-.....          .++..-..    
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            4567777777777777         344  3479999999999999999987322111          11111111    


Q ss_pred             hHHHHHHHHhc---cCCeEEEEeccccc
Q 037859          265 NSELRSLLIDT---SSKSILVIEDIDCS  289 (504)
Q Consensus       265 ~~~l~~l~~~~---~~~~Il~iDeiD~~  289 (504)
                      ..+|++-+...   -.++|+++||+|.+
T Consensus       163 k~eL~~~v~~~v~~C~rslFIFDE~DKm  190 (344)
T KOG2170|consen  163 KEELKNRVRGTVQACQRSLFIFDEVDKL  190 (344)
T ss_pred             HHHHHHHHHHHHHhcCCceEEechhhhc
Confidence            12333333222   37899999999986

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=97.36  E-value=0.00028  Score=66.94  Aligned_cols=106  Identities=25%  Similarity=0.278  Sum_probs=61.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEec-cccCChHHHHHHHHhccCCeEEEEecccccccccccccccccccccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL-TTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDK  306 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~-~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~  306 (504)
                      -++|.|+.|+|||++++.|+..     |.-+. ....+.+.+.    .....-|+.|||++.+-    +.          
T Consensus        54 ~lvl~G~QG~GKStf~~~L~~~-----~~~d~~~~~~~kd~~~----~l~~~~iveldEl~~~~----k~----------  110 (198)
T PF05272_consen   54 VLVLVGKQGIGKSTFFRKLGPE-----YFSDSINDFDDKDFLE----QLQGKWIVELDELDGLS----KK----------  110 (198)
T ss_pred             eeeEecCCcccHHHHHHHHhHH-----hccCccccCCCcHHHH----HHHHhHheeHHHHhhcc----hh----------
Confidence            3678999999999999999766     22222 2222222222    23456789999999841    10          


Q ss_pred             cccCcccccccccCCCcchhhHHHHHhhh-hcCccc-------cCCCceEEEEecCCCCCC-ChhhhcCCCceeEEEecC
Q 037859          307 EEKNPIEKKEKEDGGSKKSKVTLSGLLNF-IDGLWS-------ASGEERIIVFTTNYVDKL-DPALIRRGRMDKHIEMSY  377 (504)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~~~~ls~lL~~-lDg~~~-------~~~~~~ivI~tTN~~e~L-d~ALlRpGR~d~~I~~~~  377 (504)
                                        ....+..++.. .|-+..       ......++|+|||..+-| |+.=-|  || ..|+++.
T Consensus       111 ------------------~~~~lK~~iT~~~~~~R~pY~~~~~~~~R~~~figTtN~~~~L~D~TGnR--Rf-~~v~v~~  169 (198)
T PF05272_consen  111 ------------------DVEALKSFITRRTDTYRPPYGRDPEEFPRRAVFIGTTNDDDFLKDPTGNR--RF-WPVEVSK  169 (198)
T ss_pred             ------------------hHHHHHHHhcccceeeecCCcCcceeeceeEEEEeccCCcceeeCCCCCe--EE-EEEEEcC
Confidence                              11123333321 111110       111224789999998855 666678  88 6777765

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=97.35  E-value=0.001  Score=69.43  Aligned_cols=63  Identities=13%  Similarity=0.188  Sum_probs=38.4

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc-CCcEEEEeccccCChHHHHHHHHhccCCeEEEEeccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL-NYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCS  289 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~  289 (504)
                      ..++++.||||||||+++.+++.+. -..........+-.+- -.+.+......-+|+|||+-.+
T Consensus       209 ~~Nli~lGp~GTGKThla~~l~~~~a~~sG~f~T~a~Lf~~L-~~~~lg~v~~~DlLI~DEvgyl  272 (449)
T TIGR02688       209 NYNLIELGPKGTGKSYIYNNLSPYVILISGGTITVAKLFYNI-STRQIGLVGRWDVVAFDEVATL  272 (449)
T ss_pred             CCcEEEECCCCCCHHHHHHHHhHHHHHHcCCcCcHHHHHHHH-HHHHHhhhccCCEEEEEcCCCC
Confidence            5679999999999999999988762 1010111111111000 0133344457789999999763

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.

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=97.35  E-value=0.00034  Score=75.12  Aligned_cols=148  Identities=22%  Similarity=0.333  Sum_probs=91.0

Q ss_pred             ccccccChhHHHHHHHhh-------------ccc---ccccCCCCCcHHHHHHHHHHhcCCcEEEEecc----cc-----
Q 037859          208 FDTLAMETKKKEEIKKDL-------------KKG---YLLYGPPGTGKSTMIAAMANFLNYDVYDLELT----TV-----  262 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l-------------~rg---~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~----~~-----  262 (504)
                      |-.+-+.+.+|.-|+-.+             -||   +++.|.||||||-+.++.++.+-..+|..--.    .+     
T Consensus       344 ~PsIyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR~vYtsGkaSSaAGLTaaVv  423 (764)
T KOG0480|consen  344 FPSIYGHELVKAGILLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPRSVYTSGKASSAAGLTAAVV  423 (764)
T ss_pred             CccccchHHHHhhHHHHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCcceEecCcccccccceEEEE
Confidence            445667777777776665             234   89999999999999999999998888854111    11     


Q ss_pred             CChHHHHHHHHhc-----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhc
Q 037859          263 QDNSELRSLLIDT-----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID  337 (504)
Q Consensus       263 ~~~~~l~~l~~~~-----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD  337 (504)
                      .+. +--....++     ..+.|-.|||+|.+-    .+                               ..-.++.+|+
T Consensus       424 kD~-esgdf~iEAGALmLADnGICCIDEFDKMd----~~-------------------------------dqvAihEAME  467 (764)
T KOG0480|consen  424 KDE-ESGDFTIEAGALMLADNGICCIDEFDKMD----VK-------------------------------DQVAIHEAME  467 (764)
T ss_pred             ecC-CCCceeeecCcEEEccCceEEechhcccC----hH-------------------------------hHHHHHHHHH
Confidence            111 001111112     467899999999861    10                               1112333332


Q ss_pred             ---------CccccCCCceEEEEecCCCC-------------CCChhhhcCCCceeEE-EecCCCHHHHHHHHHHhcCc
Q 037859          338 ---------GLWSASGEERIIVFTTNYVD-------------KLDPALIRRGRMDKHI-EMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       338 ---------g~~~~~~~~~ivI~tTN~~e-------------~Ld~ALlRpGR~d~~I-~~~~p~~e~~~~i~~~~l~~  393 (504)
                               |+...-+..--||+|+|+..             +++++|+.  |||... -++.|+...=..|.++.+..
T Consensus       468 QQtISIaKAGv~aTLnARtSIlAAANPv~GhYdR~ktl~eNi~msApimS--RFDL~FiLlD~~nE~~D~~ia~hIld~  544 (764)
T KOG0480|consen  468 QQTISIAKAGVVATLNARTSILAAANPVGGHYDRKKTLRENINMSAPIMS--RFDLFFILLDDCNEVVDYAIARHILDL  544 (764)
T ss_pred             hheehheecceEEeecchhhhhhhcCCcCCccccccchhhhcCCCchhhh--hhcEEEEEecCCchHHHHHHHHHHHHH
Confidence                     21110011123677777542             47899999  999654 56889888777777777643

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=97.35  E-value=0.00027  Score=78.25  Aligned_cols=49  Identities=33%  Similarity=0.463  Sum_probs=43.1

Q ss_pred             CCccccccccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcCC
Q 037859          204 HPATFDTLAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      .|..|+.+.++++.++.+...+  ++.++|+||||||||++++++|..+..
T Consensus        26 ~~~~~~~vigq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla~~l~~~l~~   76 (637)
T PRK13765         26 PERLIDQVIGQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLAKAMAELLPK   76 (637)
T ss_pred             CcccHHHcCChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHcCh
Confidence            3788999999999888877766  678999999999999999999998864

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.32  E-value=0.00093  Score=64.22  Aligned_cols=21  Identities=29%  Similarity=0.498  Sum_probs=19.8

Q ss_pred             ccccccCCCCCcHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMA  247 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA  247 (504)
                      |.++|.||.|+|||++.+.++
T Consensus        30 ~~~~itGpNg~GKStlLk~i~   50 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVA   50 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            679999999999999999998

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

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=97.31  E-value=0.0036  Score=60.61  Aligned_cols=125  Identities=12%  Similarity=0.081  Sum_probs=91.8

Q ss_pred             cccccccCCCC-CcHHHHHHHHHHhcC---------CcEEEEeccc-------cCChHHHHHHHHhc------cCCeEEE
Q 037859          226 KKGYLLYGPPG-TGKSTMIAAMANFLN---------YDVYDLELTT-------VQDNSELRSLLIDT------SSKSILV  282 (504)
Q Consensus       226 ~rg~LL~GPpG-tGKTsla~aiA~~l~---------~~i~~l~~~~-------~~~~~~l~~l~~~~------~~~~Il~  282 (504)
                      ...|||.|..+ +||.-++.-++..+.         -+++.+....       .-+-+++|.+....      +..-|++
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            56799999998 999999888877662         2455554321       12345566554433      2567999


Q ss_pred             EecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChh
Q 037859          283 IEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPA  362 (504)
Q Consensus       283 iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~A  362 (504)
                      |+++|.+                                   +....+.||..++.-    +...++|++|..++.|.|.
T Consensus        95 I~~ae~m-----------------------------------t~~AANALLKtLEEP----P~~t~fILit~~~~~LLpT  135 (263)
T PRK06581         95 IYSAELM-----------------------------------NLNAANSCLKILEDA----PKNSYIFLITSRAASIIST  135 (263)
T ss_pred             EechHHh-----------------------------------CHHHHHHHHHhhcCC----CCCeEEEEEeCChhhCchh
Confidence            9999986                                   234678899998853    4567888888899999999


Q ss_pred             hhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          363 LIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       363 LlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ++.  |+ .++.|..|....-.++...++.
T Consensus       136 IrS--RC-q~i~~~~p~~~~~~e~~~~~~~  162 (263)
T PRK06581        136 IRS--RC-FKINVRSSILHAYNELYSQFIQ  162 (263)
T ss_pred             Hhh--ce-EEEeCCCCCHHHHHHHHHHhcc
Confidence            999  88 6899999988777777666553

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.31  E-value=0.00016  Score=66.05  Aligned_cols=28  Identities=36%  Similarity=0.615  Sum_probs=24.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      ++|.||||||||++++.+++.++..+++
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~v~   28 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKFIE   28 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeEEe
Confidence            5789999999999999999999865543

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.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=97.31  E-value=0.00016  Score=65.12  Aligned_cols=28  Identities=36%  Similarity=0.455  Sum_probs=24.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      ++|+||||+|||++++.++..++..+++
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~i~   29 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPFID   29 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEEEe
Confidence            5789999999999999999998776553

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK06217 hypothetical protein; Validated

Probab=97.30  E-value=0.00017  Score=67.51  Aligned_cols=30  Identities=30%  Similarity=0.438  Sum_probs=27.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      ++|.|+||+||||++++||..++++++++|
T Consensus         4 I~i~G~~GsGKSTla~~L~~~l~~~~~~~D   33 (183)
T PRK06217          4 IHITGASGSGTTTLGAALAERLDIPHLDTD   33 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCcEEEcC
Confidence            789999999999999999999999887664

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=97.30  E-value=0.00036  Score=64.62  Aligned_cols=62  Identities=18%  Similarity=0.250  Sum_probs=44.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChH-----------------------HHHHHHHh-ccCCeEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNS-----------------------ELRSLLID-TSSKSILVIE  284 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~-----------------------~l~~l~~~-~~~~~Il~iD  284 (504)
                      +|+.||||+|||++|..+|..++.+++++......+.+                       +|..++.. ..++.+++||
T Consensus         4 ili~G~~~sGKS~~a~~l~~~~~~~~~~iat~~~~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~~~~~~VlID   83 (170)
T PRK05800          4 ILVTGGARSGKSRFAERLAAQSGLQVLYIATAQPFDDEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADAAPGRCVLVD   83 (170)
T ss_pred             EEEECCCCccHHHHHHHHHHHcCCCcEeCcCCCCChHHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhcCCCCEEEeh
Confidence            68999999999999999999998888877765543332                       23333433 3445688888


Q ss_pred             cccccc
Q 037859          285 DIDCSL  290 (504)
Q Consensus       285 eiD~~~  290 (504)
                      -+-.++
T Consensus        84 ~Lt~~~   89 (170)
T PRK05800         84 CLTTWV   89 (170)
T ss_pred             hHHHHH
Confidence            877653

>PF14516 AAA_35: AAA-like domain

Probab=97.29  E-value=0.002  Score=66.21  Aligned_cols=46  Identities=17%  Similarity=0.399  Sum_probs=34.0

Q ss_pred             HHHHHHHhhcc-c--ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecccc
Q 037859          217 KKEEIKKDLKK-G--YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTV  262 (504)
Q Consensus       217 ~k~~i~~~l~r-g--~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  262 (504)
                      .-+.+.+.+.+ |  +.++||..+||||+...+...+   |+..+.+++..+
T Consensus        19 ~e~~~~~~i~~~G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~   70 (331)
T PF14516_consen   19 AEQECYQEIVQPGSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQL   70 (331)
T ss_pred             HHHHHHHHHhcCCCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecC
Confidence            44455555522 5  5678999999999999887665   777888888765

>PRK13948 shikimate kinase; Provisional

Probab=97.28  E-value=0.0002  Score=67.09  Aligned_cols=33  Identities=27%  Similarity=0.196  Sum_probs=30.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      ++.++|.|++|||||++++.+|..+++++++.|
T Consensus        10 ~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D   42 (182)
T PRK13948         10 VTWVALAGFMGTGKSRIGWELSRALMLHFIDTD   42 (182)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHcCCCEEECC
Confidence            577999999999999999999999999999876

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.28  E-value=0.00018  Score=67.03  Aligned_cols=28  Identities=25%  Similarity=0.506  Sum_probs=24.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      ++++||||+|||++++.||..+++..+.
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~~~is   29 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGFTHLS   29 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEE
Confidence            5789999999999999999999875544

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.

>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=97.27  E-value=0.00018  Score=64.09  Aligned_cols=30  Identities=33%  Similarity=0.471  Sum_probs=27.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +.+.|+||||||++++.+|..++++++..+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence            568999999999999999999999988776

>PRK14532 adenylate kinase; Provisional

Probab=97.26  E-value=0.00019  Score=67.31  Aligned_cols=29  Identities=24%  Similarity=0.431  Sum_probs=25.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|.||||+|||++++.+|..+|+..++.
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~g~~~is~   31 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEERGMVQLST   31 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEeC
Confidence            78999999999999999999999776653

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

Probab=97.26  E-value=0.00017  Score=64.11  Aligned_cols=32  Identities=31%  Similarity=0.556  Sum_probs=28.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +-.+|+.|-||||||+++..+|..++++.+.+
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~~~~~i~i   38 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKTGLEYIEI   38 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHhCCceEeh
Confidence            34699999999999999999999999887654

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=97.26  E-value=0.0016  Score=61.90  Aligned_cols=63  Identities=17%  Similarity=0.293  Sum_probs=41.4

Q ss_pred             cccccccCCCCCcHHHHHHHHHHh-----cCCcEE-----------EEeccc---cC--------ChHHHHHHHHhcc--
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANF-----LNYDVY-----------DLELTT---VQ--------DNSELRSLLIDTS--  276 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~-----l~~~i~-----------~l~~~~---~~--------~~~~l~~l~~~~~--  276 (504)
                      .+-++|.||.|+|||++.+.|+..     .|.++-           ...++.   +.        ...++..++....  
T Consensus        25 g~~~~ltGpNg~GKSTllr~i~~~~~l~~~G~~v~a~~~~~q~~~l~~~~~~~d~l~~~~s~~~~e~~~~~~iL~~~~~~  104 (199)
T cd03283          25 KNGILITGSNMSGKSTFLRTIGVNVILAQAGAPVCASSFELPPVKIFTSIRVSDDLRDGISYFYAELRRLKEIVEKAKKG  104 (199)
T ss_pred             CcEEEEECCCCCChHHHHHHHHHHHHHHHcCCEEecCccCcccceEEEeccchhccccccChHHHHHHHHHHHHHhccCC
Confidence            456899999999999999999853     344321           001110   00        1134566777777  


Q ss_pred             CCeEEEEecccc
Q 037859          277 SKSILVIEDIDC  288 (504)
Q Consensus       277 ~~~Il~iDeiD~  288 (504)
                      .|.++++||.=.
T Consensus       105 ~p~llllDEp~~  116 (199)
T cd03283         105 EPVLFLLDEIFK  116 (199)
T ss_pred             CCeEEEEecccC
Confidence            899999999744

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

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

Probab=97.23  E-value=0.00023  Score=65.94  Aligned_cols=50  Identities=22%  Similarity=0.376  Sum_probs=32.2

Q ss_pred             cChhHHHHHHHhh-------cccccccCCCCCcHHHHHHHHHHhcCCc---EEEEecccc
Q 037859          213 METKKKEEIKKDL-------KKGYLLYGPPGTGKSTMIAAMANFLNYD---VYDLELTTV  262 (504)
Q Consensus       213 ~~~~~k~~i~~~l-------~rg~LL~GPpGtGKTsla~aiA~~l~~~---i~~l~~~~~  262 (504)
                      +.++..+++...+       ++.++++||||+|||++++++...+..+   ++.+++...
T Consensus         4 gR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~~~~   63 (185)
T PF13191_consen    4 GREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVISINCDDS   63 (185)
T ss_dssp             T-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEEETT
T ss_pred             CHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEEecc
Confidence            4444555555555       6779999999999999999998777444   666666655

>PRK13946 shikimate kinase; Provisional

Probab=97.23  E-value=0.0002  Score=67.19  Aligned_cols=34  Identities=32%  Similarity=0.431  Sum_probs=30.9

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      ++.++|.|+||||||++++.+|..+|+++++.|.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D~   43 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLGLPFLDADT   43 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCCCeECcCH
Confidence            4678999999999999999999999999988763

>PRK14531 adenylate kinase; Provisional

Probab=97.23  E-value=0.00022  Score=66.78  Aligned_cols=30  Identities=30%  Similarity=0.507  Sum_probs=26.7

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      +-++++||||+|||++++.+|..+|++.+.
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~g~~~is   32 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAHGLRHLS   32 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCeEe
Confidence            458999999999999999999999887654

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.23  E-value=0.0014  Score=65.12  Aligned_cols=46  Identities=30%  Similarity=0.507  Sum_probs=37.4

Q ss_pred             ccccccccChhHHHHHHHhh--ccc-ccccCCCCCcHHHHHHHHHHhcC
Q 037859          206 ATFDTLAMETKKKEEIKKDL--KKG-YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l--~rg-~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      ..++++++.++..+.+...+  ++| +++.||+|+|||++++++..++.
T Consensus        57 ~~l~~lg~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~  105 (264)
T cd01129          57 LDLEKLGLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELN  105 (264)
T ss_pred             CCHHHcCCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhC
Confidence            45788888888877776665  556 78899999999999999987764

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.

>COG1855 ATPase (PilT family) [General function prediction only]

Probab=97.22  E-value=0.00025  Score=73.39  Aligned_cols=46  Identities=33%  Similarity=0.618  Sum_probs=41.3

Q ss_pred             cccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          207 TFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      .++++.+++.+++++.+. .+|+|+-||||.|||++|+|+|..+...
T Consensus       245 ~ledY~L~dkl~eRL~er-aeGILIAG~PGaGKsTFaqAlAefy~~~  290 (604)
T COG1855         245 SLEDYGLSDKLKERLEER-AEGILIAGAPGAGKSTFAQALAEFYASQ  290 (604)
T ss_pred             chhhcCCCHHHHHHHHhh-hcceEEecCCCCChhHHHHHHHHHHHhc
Confidence            588999999999999887 5899999999999999999999988543

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=97.22  E-value=0.00024  Score=65.92  Aligned_cols=34  Identities=41%  Similarity=0.651  Sum_probs=30.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      ++.++|.||+|+|||++++.+|+.+++++++.+.
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D~   37 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQ   37 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcCCcEEECCc
Confidence            3468999999999999999999999999887764

>PRK08233 hypothetical protein; Provisional

Probab=97.21  E-value=0.0011  Score=61.49  Aligned_cols=30  Identities=17%  Similarity=0.283  Sum_probs=23.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC-CcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN-YDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~-~~i~~l~  258 (504)
                      +.+.|+||+||||+++.||..++ ..++..+
T Consensus         6 I~I~G~~GsGKtTla~~L~~~l~~~~~~~~d   36 (182)
T PRK08233          6 ITIAAVSGGGKTTLTERLTHKLKNSKALYFD   36 (182)
T ss_pred             EEEECCCCCCHHHHHHHHHhhCCCCceEEEC
Confidence            56789999999999999999885 3444443

>PTZ00202 tuzin; Provisional

Probab=97.20  E-value=0.0095  Score=62.54  Aligned_cols=56  Identities=14%  Similarity=0.203  Sum_probs=43.9

Q ss_pred             CccccccccChhHHHHHHHhh-------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecc
Q 037859          205 PATFDTLAMETKKKEEIKKDL-------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELT  260 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l-------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  260 (504)
                      |.....+.+.+....++...+       ++-+.|.||+|||||++++.++..++...|.+|..
T Consensus       258 Pa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~~~qL~vNpr  320 (550)
T PTZ00202        258 PAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEGMPAVFVDVR  320 (550)
T ss_pred             CCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCCceEEEECCC
Confidence            444556677776666665554       45578999999999999999999999888888877

>cd01394 radB RadB

Probab=97.19  E-value=0.0012  Score=63.30  Aligned_cols=35  Identities=31%  Similarity=0.563  Sum_probs=27.6

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      ++|  ++++||||||||+++..+|...   +.++.+++..
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e   56 (218)
T cd01394          17 ERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTE   56 (218)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECC
Confidence            445  8899999999999999998665   5667667553

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

>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=97.18  E-value=0.00026  Score=66.40  Aligned_cols=29  Identities=34%  Similarity=0.534  Sum_probs=25.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++++||||+|||++++.||..+++..+.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~~~~i~~   30 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYGLPHIST   30 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence            68999999999999999999998776654

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=97.18  E-value=0.00028  Score=64.99  Aligned_cols=31  Identities=35%  Similarity=0.523  Sum_probs=28.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      .++|.|+||||||++++.+|..+|+++++.+
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~lg~~~~d~D   34 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQALGYRFVDTD   34 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEEcc
Confidence            4788999999999999999999999998765

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.17  E-value=0.0017  Score=57.58  Aligned_cols=25  Identities=32%  Similarity=0.442  Sum_probs=22.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -++|.|+.|+|||++++++++.++.
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            3779999999999999999999864

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

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

Probab=97.15  E-value=0.0023  Score=67.35  Aligned_cols=116  Identities=21%  Similarity=0.182  Sum_probs=69.2

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCc-EEEEeccccCChHHH---HHHHHhcc--CCeEEEEeccccccccccccccccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYD-VYDLELTTVQDNSEL---RSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKE  301 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~-i~~l~~~~~~~~~~l---~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~  301 (504)
                      -++++||-+||||++++-+...+.-. +|...+.......++   .+.+....  .++.||||||+++=           
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~~iy~~~~d~~~~~~~l~d~~~~~~~~~~~~~~yifLDEIq~v~-----------  107 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRIELLDLLRAYIELKEREKSYIFLDEIQNVP-----------  107 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcceEEEEecchhcchhhHHHHHHHHHHhhccCCceEEEecccCch-----------
Confidence            68899999999999998888877554 343333333333333   33333333  45899999999841           


Q ss_pred             ccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCC-ChhhhcCCCceeEEEecCCCH
Q 037859          302 KDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKL-DPALIRRGRMDKHIEMSYCCF  380 (504)
Q Consensus       302 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~L-d~ALlRpGR~d~~I~~~~p~~  380 (504)
                                            .-...+..|   .|..    .. .++|.++|..-.+ ..+-.=|||. ..+.+.+.++
T Consensus       108 ----------------------~W~~~lk~l---~d~~----~~-~v~itgsss~ll~~~~~~~L~GR~-~~~~l~PlSF  156 (398)
T COG1373         108 ----------------------DWERALKYL---YDRG----NL-DVLITGSSSSLLSKEISESLAGRG-KDLELYPLSF  156 (398)
T ss_pred             ----------------------hHHHHHHHH---Hccc----cc-eEEEECCchhhhccchhhhcCCCc-eeEEECCCCH
Confidence                                  011222322   2321    11 3556555544322 3344456796 6888988899


Q ss_pred             HHHHH
Q 037859          381 EAFKV  385 (504)
Q Consensus       381 e~~~~  385 (504)
                      .++-.
T Consensus       157 ~Efl~  161 (398)
T COG1373         157 REFLK  161 (398)
T ss_pred             HHHHh
Confidence            88854

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=97.14  E-value=0.00038  Score=60.69  Aligned_cols=41  Identities=24%  Similarity=0.256  Sum_probs=31.4

Q ss_pred             ccccChhHHHHHHHhh---------ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          210 TLAMETKKKEEIKKDL---------KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l---------~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .+.+++-.++.|++.+         ++.  +.|+||||||||.+++-||+.+
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            4566666666666666         333  4489999999999999999985

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

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=97.14  E-value=0.00043  Score=70.45  Aligned_cols=46  Identities=24%  Similarity=0.348  Sum_probs=37.0

Q ss_pred             cChhHHHHHHHhh------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          213 METKKKEEIKKDL------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       213 ~~~~~k~~i~~~l------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      ++++.++.+.+.+            +..+.|.|+||||||++++.+|..+|+++++++
T Consensus       108 l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D  165 (309)
T PRK08154        108 ASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARLGVPFVELN  165 (309)
T ss_pred             CCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEeHH
Confidence            5566555555554            455899999999999999999999999999654

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.13  E-value=0.00031  Score=63.45  Aligned_cols=28  Identities=29%  Similarity=0.536  Sum_probs=25.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      +-+.|||||||||+++-||.++|++++.
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl~~vs   30 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGLKLVS   30 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCCceee
Confidence            3468999999999999999999999885

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.13  E-value=0.0018  Score=67.15  Aligned_cols=23  Identities=30%  Similarity=0.616  Sum_probs=21.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      .|++||||||||+|++.|++...
T Consensus       172 ~lIvgppGvGKTTLaK~Ian~I~  194 (416)
T PRK09376        172 GLIVAPPKAGKTVLLQNIANSIT  194 (416)
T ss_pred             EEEeCCCCCChhHHHHHHHHHHH
Confidence            78899999999999999998764

>PRK06762 hypothetical protein; Provisional

Probab=97.13  E-value=0.00036  Score=63.98  Aligned_cols=32  Identities=19%  Similarity=0.303  Sum_probs=26.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +-++|+|+||+|||++|+.++..++..++.++
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l~~~~~~i~   34 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERLGRGTLLVS   34 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCeEEec
Confidence            45789999999999999999999865565554

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.12  E-value=0.0024  Score=66.77  Aligned_cols=25  Identities=44%  Similarity=0.792  Sum_probs=21.9

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++-++|+||+|+||||++.-+|..+
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~  198 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIY  198 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3458899999999999999999865

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=97.11  E-value=0.0011  Score=58.00  Aligned_cols=70  Identities=31%  Similarity=0.405  Sum_probs=46.7

Q ss_pred             HHHHhhccc--ccccCCCCCcHHHHHHHHHHhcCC--------------------cEEEEeccccCChHHHHHH--HHhc
Q 037859          220 EIKKDLKKG--YLLYGPPGTGKSTMIAAMANFLNY--------------------DVYDLELTTVQDNSELRSL--LIDT  275 (504)
Q Consensus       220 ~i~~~l~rg--~LL~GPpGtGKTsla~aiA~~l~~--------------------~i~~l~~~~~~~~~~l~~l--~~~~  275 (504)
                      .+...++.|  ++|+|+=|+|||++++++|..+|.                    ++|-+|+--+.+..++..+  +...
T Consensus         7 ~l~~~l~~g~vi~L~GdLGaGKTtf~r~l~~~lg~~~~V~SPTF~l~~~Y~~~~~~l~H~DLYRl~~~~e~~~~g~~e~~   86 (123)
T PF02367_consen    7 KLAQILKPGDVILLSGDLGAGKTTFVRGLARALGIDEEVTSPTFSLVNEYEGGNIPLYHFDLYRLEDPEELEDLGLEEYL   86 (123)
T ss_dssp             HHHHHHSS-EEEEEEESTTSSHHHHHHHHHHHTT--S----TTTTSEEEEEETTEEEEEEE-TT-SSTHHHHHCTTTTCS
T ss_pred             HHHHhCCCCCEEEEECCCCCCHHHHHHHHHHHcCCCCCcCCCCeEEEEEecCCCceEEEeeccccCCHHHHHHCCchhhh
Confidence            344444444  889999999999999999998853                    4555666666666655443  2334


Q ss_pred             cCCeEEEEeccccc
Q 037859          276 SSKSILVIEDIDCS  289 (504)
Q Consensus       276 ~~~~Il~iDeiD~~  289 (504)
                      ...+|.+||=.+.+
T Consensus        87 ~~~~i~~IEW~e~~  100 (123)
T PF02367_consen   87 FEDGICVIEWPERL  100 (123)
T ss_dssp             SSSEEEEEESGGGG
T ss_pred             CCCCEEEEECcccc
Confidence            56889998766554

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PF13245 AAA_19: Part of AAA domain

Probab=97.10  E-value=0.00057  Score=54.49  Aligned_cols=33  Identities=39%  Similarity=0.618  Sum_probs=21.3

Q ss_pred             cccc-ccCCCCCcHH-HHHHHHHHhc------CCcEEEEec
Q 037859          227 KGYL-LYGPPGTGKS-TMIAAMANFL------NYDVYDLEL  259 (504)
Q Consensus       227 rg~L-L~GPpGtGKT-sla~aiA~~l------~~~i~~l~~  259 (504)
                      .+++ +.|||||||| ++++.++..+      +..+..+..
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~   50 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAP   50 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECC
Confidence            4555 5999999999 5555555555      444555543

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=97.09  E-value=0.0028  Score=64.14  Aligned_cols=93  Identities=14%  Similarity=0.224  Sum_probs=69.8

Q ss_pred             ceeeecCCCccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHH
Q 037859          197 WSHVFFEHPATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSE  267 (504)
Q Consensus       197 w~~~~~~~p~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~  267 (504)
                      -..+++.+-..|+.++......+.++...      --.+|+.|..||||-.+|+|.-...   +.|+..++|.++-++..
T Consensus       192 ~~~~~~~~~~~F~~~v~~S~~mk~~v~qA~k~AmlDAPLLI~GeTGTGKdLlAkaCH~~S~R~~~pFlalNCA~lPe~~a  271 (511)
T COG3283         192 LQNVAAQDVSGFEQIVAVSPKMKHVVEQAQKLAMLDAPLLITGETGTGKDLLAKACHLASPRHSKPFLALNCASLPEDAA  271 (511)
T ss_pred             HhhcccccccchHHHhhccHHHHHHHHHHHHhhccCCCeEEecCCCchHHHHHHHHhhcCcccCCCeeEeecCCCchhHh
Confidence            44567778888999999888887777765      4568999999999999999874433   67899999999865444


Q ss_pred             HHHHHHhc------------cCCeEEEEeccccc
Q 037859          268 LRSLLIDT------------SSKSILVIEDIDCS  289 (504)
Q Consensus       268 l~~l~~~~------------~~~~Il~iDeiD~~  289 (504)
                      -..+|..+            ....-+|+|||-.+
T Consensus       272 EsElFG~apg~~gk~GffE~AngGTVlLDeIgEm  305 (511)
T COG3283         272 ESELFGHAPGDEGKKGFFEQANGGTVLLDEIGEM  305 (511)
T ss_pred             HHHHhcCCCCCCCccchhhhccCCeEEeehhhhc
Confidence            44445433            35567889998654

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.09  E-value=0.0011  Score=66.43  Aligned_cols=35  Identities=31%  Similarity=0.374  Sum_probs=27.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc----C-CcEEEEeccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL----N-YDVYDLELTT  261 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l----~-~~i~~l~~~~  261 (504)
                      +-++|.||+|+|||+++..+|.++    + ..+..+++..
T Consensus       195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~  234 (282)
T TIGR03499       195 GVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDT  234 (282)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCc
Confidence            347899999999999999999876    3 5666665544

>PRK04296 thymidine kinase; Provisional

Probab=97.09  E-value=0.0037  Score=58.91  Aligned_cols=29  Identities=28%  Similarity=0.342  Sum_probs=23.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l  257 (504)
                      .|++||||+|||+++..++..+   +..++.+
T Consensus         5 ~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~   36 (190)
T PRK04296          5 EFIYGAMNSGKSTELLQRAYNYEERGMKVLVF   36 (190)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHcCCeEEEE
Confidence            6789999999999998887665   5555555

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.08  E-value=0.0088  Score=69.53  Aligned_cols=57  Identities=19%  Similarity=0.249  Sum_probs=36.9

Q ss_pred             cCCCccccccccChhHHHHHHHhh-cccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDL-KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l-~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      +..|..=..++-.+.+.+.+-... .+-++++||+|.|||+++...+...+ ++.-+.+
T Consensus         7 ~~~p~~~~~~~~R~rl~~~l~~~~~~~~~~v~apaG~GKTtl~~~~~~~~~-~~~w~~l   64 (903)
T PRK04841          7 LSRPVRLHNTVVRERLLAKLSGANNYRLVLVTSPAGYGKTTLISQWAAGKN-NLGWYSL   64 (903)
T ss_pred             cCCCCCccccCcchHHHHHHhcccCCCeEEEECCCCCCHHHHHHHHHHhCC-CeEEEec
Confidence            334444445555565555443322 34588999999999999999887766 5544444

>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=97.06  E-value=0.00091  Score=66.51  Aligned_cols=85  Identities=24%  Similarity=0.416  Sum_probs=52.3

Q ss_pred             CCccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhcC---CcEEEEecc-cc-----------
Q 037859          204 HPATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFLN---YDVYDLELT-TV-----------  262 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~-~~-----------  262 (504)
                      .+.+++.+...+...+.+.+.+      +..+|+.||+|+|||++.+++..++.   ..++.++-. .+           
T Consensus        99 ~~~sle~l~~~~~~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~~~~~~~~~  178 (270)
T PF00437_consen   99 KPFSLEDLGESGSIPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLPGPNQIQIQ  178 (270)
T ss_dssp             S--CHCCCCHTHHCHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--SCSSEEEEE
T ss_pred             ccccHhhccCchhhHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhccccccceEEeccccceeecccceEEEE
Confidence            4446888877665555555554      45689999999999999999998873   334443211 00           


Q ss_pred             --CChHHHHHHHHhc--cCCeEEEEecccc
Q 037859          263 --QDNSELRSLLIDT--SSKSILVIEDIDC  288 (504)
Q Consensus       263 --~~~~~l~~l~~~~--~~~~Il~iDeiD~  288 (504)
                        .....+..++..+  ..|.+|+|.||-.
T Consensus       179 ~~~~~~~~~~~l~~~LR~~pD~iiigEiR~  208 (270)
T PF00437_consen  179 TRRDEISYEDLLKSALRQDPDVIIIGEIRD  208 (270)
T ss_dssp             EETTTBSHHHHHHHHTTS--SEEEESCE-S
T ss_pred             eecCcccHHHHHHHHhcCCCCcccccccCC
Confidence              1223345555443  4688999999854

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 ....

>PRK14530 adenylate kinase; Provisional

Probab=97.06  E-value=0.00041  Score=66.65  Aligned_cols=30  Identities=30%  Similarity=0.451  Sum_probs=26.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .++|.||||+||||+++.||..++++.+..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~~~~i~~   34 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFGVEHVTT   34 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            488999999999999999999999876643

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=97.05  E-value=0.00033  Score=64.09  Aligned_cols=28  Identities=36%  Similarity=0.631  Sum_probs=25.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +++.|.|||||||+++.++ .+|++.+.+
T Consensus         3 I~ITGTPGvGKTT~~~~L~-~lg~~~i~l   30 (180)
T COG1936           3 IAITGTPGVGKTTVCKLLR-ELGYKVIEL   30 (180)
T ss_pred             EEEeCCCCCchHHHHHHHH-HhCCceeeH
Confidence            5789999999999999999 999987765

>PRK02496 adk adenylate kinase; Provisional

Probab=97.03  E-value=0.0004  Score=64.88  Aligned_cols=29  Identities=31%  Similarity=0.589  Sum_probs=26.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +++.||||+|||++++.||..++++.+..
T Consensus         4 i~i~G~pGsGKst~a~~la~~~~~~~i~~   32 (184)
T PRK02496          4 LIFLGPPGAGKGTQAVVLAEHLHIPHIST   32 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEEh
Confidence            78899999999999999999999876654

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.03  E-value=0.00046  Score=64.31  Aligned_cols=29  Identities=21%  Similarity=0.387  Sum_probs=25.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      -+++.||||+||||+++.+|..+|+..+.
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~~~g~~~~~   33 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVEKYGFTHLS   33 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEe
Confidence            46789999999999999999998876543

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.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.02  E-value=0.0019  Score=64.87  Aligned_cols=130  Identities=22%  Similarity=0.250  Sum_probs=81.8

Q ss_pred             cccccccCCCCCcHHHHHHHH---HHhcCCcEEEEeccccC-C--------------------------hHHHHHHHHhc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAM---ANFLNYDVYDLELTTVQ-D--------------------------NSELRSLLIDT  275 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~ai---A~~l~~~i~~l~~~~~~-~--------------------------~~~l~~l~~~~  275 (504)
                      ...+++.||-|+|||.++...   +.+.|-+++.+.++..- .                          .+.+.+++...
T Consensus        49 snsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L  128 (408)
T KOG2228|consen   49 SNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQLALELNRIVKSFGSFTENLSKLLEAL  128 (408)
T ss_pred             CCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHHHHHHHhhhheeecccchhHHHHHHHH
Confidence            567999999999999987643   33677788877666531 1                          11222222221


Q ss_pred             -------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceE
Q 037859          276 -------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERI  348 (504)
Q Consensus       276 -------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~i  348 (504)
                             +.+.|.++||||.+++                                ..+.+  -|-|.+|-..+ .+.++.
T Consensus       129 ~~~~~~t~~~ViFIldEfDlf~~--------------------------------h~rQt--llYnlfDisqs-~r~Pic  173 (408)
T KOG2228|consen  129 KKGDETTSGKVIFILDEFDLFAP--------------------------------HSRQT--LLYNLFDISQS-ARAPIC  173 (408)
T ss_pred             hcCCCCCCceEEEEeehhhcccc--------------------------------chhhH--HHHHHHHHHhh-cCCCeE
Confidence                   1345677889998642                                11112  24456665443 345677


Q ss_pred             EEEecCCC---CCCChhhhcCCCceeE-EEecCC-CHHHHHHHHHHhcC
Q 037859          349 IVFTTNYV---DKLDPALIRRGRMDKH-IEMSYC-CFEAFKVLAKNYLD  392 (504)
Q Consensus       349 vI~tTN~~---e~Ld~ALlRpGR~d~~-I~~~~p-~~e~~~~i~~~~l~  392 (504)
                      ||+.|.+.   |.|......  ||... |.|..+ ..++...+++..+.
T Consensus       174 iig~Ttrld~lE~LEKRVKS--RFshr~I~m~~~~~l~~yv~l~r~ll~  220 (408)
T KOG2228|consen  174 IIGVTTRLDILELLEKRVKS--RFSHRVIFMLPSLPLGDYVDLYRKLLS  220 (408)
T ss_pred             EEEeeccccHHHHHHHHHHh--hcccceeeccCCCChHHHHHHHHHHhc
Confidence            78766554   455677788  99765 666554 68899999998873

>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=97.01  E-value=0.0014  Score=59.49  Aligned_cols=25  Identities=44%  Similarity=0.703  Sum_probs=22.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      .-+.|.||+|+|||+|+++|++.+.
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~   50 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLK   50 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3488999999999999999999774

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.

>PRK06547 hypothetical protein; Provisional

Probab=97.00  E-value=0.00046  Score=64.03  Aligned_cols=33  Identities=27%  Similarity=0.464  Sum_probs=28.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +.-+++.||+|||||++++.+|..++.+++.++
T Consensus        15 ~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~d   47 (172)
T PRK06547         15 MITVLIDGRSGSGKTTLAGALAARTGFQLVHLD   47 (172)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCCeeccc
Confidence            455788999999999999999999988776554

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

Probab=96.99  E-value=0.00077  Score=52.57  Aligned_cols=30  Identities=33%  Similarity=0.442  Sum_probs=23.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc-CCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL-NYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~  258 (504)
                      +.+.|+||+|||+++++++..+ +.++..++
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l~~~~~~~i~   32 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQLGGRSVVVLD   32 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCCEEEEe
Confidence            4678999999999999999996 34444443

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.

>PRK14528 adenylate kinase; Provisional

Probab=96.98  E-value=0.00051  Score=64.57  Aligned_cols=30  Identities=27%  Similarity=0.495  Sum_probs=26.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      -+++.||||+|||++++.+|..++++.+..
T Consensus         3 ~i~i~G~pGsGKtt~a~~la~~~~~~~is~   32 (186)
T PRK14528          3 NIIFMGPPGAGKGTQAKILCERLSIPQIST   32 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeeeC
Confidence            478999999999999999999999876653

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.97  E-value=0.002  Score=64.16  Aligned_cols=25  Identities=32%  Similarity=0.620  Sum_probs=22.8

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +++++.||||+|||++.+++++.+.
T Consensus       112 ~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       112 LNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCccC
Confidence            4689999999999999999999874

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.

>COG1485 Predicted ATPase [General function prediction only]

Probab=96.96  E-value=0.0011  Score=67.00  Aligned_cols=26  Identities=27%  Similarity=0.519  Sum_probs=23.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcC
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      ++|+.||||-|+|||.|.-..-..+-
T Consensus        65 ~~GlYl~GgVGrGKT~LMD~Fy~~lp   90 (367)
T COG1485          65 VRGLYLWGGVGRGKTMLMDLFYESLP   90 (367)
T ss_pred             CceEEEECCCCccHHHHHHHHHhhCC
Confidence            69999999999999999988877653

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.95  E-value=0.002  Score=59.59  Aligned_cols=62  Identities=21%  Similarity=0.248  Sum_probs=43.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCCh-----------------------HHHHHHHHhccCCeEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDN-----------------------SELRSLLIDTSSKSILVIED  285 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~-----------------------~~l~~l~~~~~~~~Il~iDe  285 (504)
                      +|+.||||+|||++|..+|...+.+.+++......+.                       .+|.+.+.+.+.+.+|+||-
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~at~~~~d~em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~~~~~VLIDc   81 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAELGGPVTYIATAEAFDDEMAERIARHRKRRPAHWRTIETPRDLVSALKELDPGDVVLIDC   81 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCeEEEEccCcCCHHHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcCCCCEEEEEc
Confidence            5789999999999999999887778877765543221                       23344443334566899988


Q ss_pred             ccccc
Q 037859          286 IDCSL  290 (504)
Q Consensus       286 iD~~~  290 (504)
                      +..++
T Consensus        82 lt~~~   86 (169)
T cd00544          82 LTLWV   86 (169)
T ss_pred             HhHHH
Confidence            87754

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.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.94  E-value=0.002  Score=62.69  Aligned_cols=33  Identities=27%  Similarity=0.284  Sum_probs=25.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      ..++++||||||||+++..++...   +.+++++++
T Consensus        26 ~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~   61 (234)
T PRK06067         26 SLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITT   61 (234)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEc
Confidence            348899999999999999996542   556665554

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.92  E-value=0.00048  Score=63.92  Aligned_cols=31  Identities=23%  Similarity=0.324  Sum_probs=26.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +-++|.||||+||||++++++..++.+++.+
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~~~~~~~   33 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLAEPWLHF   33 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhCCCcccc
Confidence            4578999999999999999999987765543

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>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=96.92  E-value=0.0079  Score=62.82  Aligned_cols=44  Identities=32%  Similarity=0.333  Sum_probs=31.3

Q ss_pred             EEEEecC--CCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          348 IIVFTTN--YVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       348 ivI~tTN--~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      +|+.|+|  ....|..||-.  |.-..|.++-++.+.-+..+...|..
T Consensus       186 VIFlT~dv~~~k~LskaLPn--~vf~tI~L~Das~~~Ak~yV~~~L~~  231 (431)
T PF10443_consen  186 VIFLTDDVSYSKPLSKALPN--RVFKTISLSDASPESAKQYVLSQLDE  231 (431)
T ss_pred             EEEECCCCchhhhHHHhCCC--CceeEEeecCCCHHHHHHHHHHHhcc
Confidence            4444444  22346667755  77789999999999988888888864

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.91  E-value=0.00063  Score=66.11  Aligned_cols=29  Identities=28%  Similarity=0.566  Sum_probs=26.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|.||||+|||++++.+|..++++.+.+
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~~g~~~is~   37 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKKENLKHINM   37 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence            88999999999999999999999877654

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain

Probab=96.90  E-value=0.0019  Score=65.52  Aligned_cols=72  Identities=24%  Similarity=0.380  Sum_probs=44.8

Q ss_pred             ChhHHHHHHHhh----------cccccccCCCCCcHHHHHHHHHHhcCCcEEE----EeccccCChHHHHHHHHhccCCe
Q 037859          214 ETKKKEEIKKDL----------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYD----LELTTVQDNSELRSLLIDTSSKS  279 (504)
Q Consensus       214 ~~~~k~~i~~~l----------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~----l~~~~~~~~~~l~~l~~~~~~~~  279 (504)
                      +++.++.+.+.+          .+-++|+|+.|+|||+++..|...+|-.-..    +.+......   +..+.....+.
T Consensus        54 d~~~~~~l~~~lg~~L~~~~~~~~~~~l~G~g~nGKStl~~~l~~l~G~~~~~~~~~~~~~~~~~~---~f~~a~l~gk~  130 (304)
T TIGR01613        54 DNELIEYLQRVIGYSLTGNYTEQKLFFLYGNGGNGKSTFQNLLSNLLGDYATTAVASLKMNEFQEH---RFGLARLEGKR  130 (304)
T ss_pred             CHHHHHHHHHHHhHHhcCCCCceEEEEEECCCCCcHHHHHHHHHHHhChhhccCCcchhhhhccCC---CchhhhhcCCE
Confidence            444555555554          4558899999999999999999888754311    112222110   11122345678


Q ss_pred             EEEEecccc
Q 037859          280 ILVIEDIDC  288 (504)
Q Consensus       280 Il~iDeiD~  288 (504)
                      +++.+|++.
T Consensus       131 l~~~~E~~~  139 (304)
T TIGR01613       131 AVIGDEVQK  139 (304)
T ss_pred             EEEecCCCC
Confidence            899999875

This model represents a clade within a larger family of proteins from viruses of bacteria and animals. Members of this family are found in phage and plasmids of bacteria and archaea only. The model describes a domain of about 300 residues, found generally toward the protein C-terminus.

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

Probab=96.90  E-value=0.0028  Score=61.07  Aligned_cols=33  Identities=18%  Similarity=0.229  Sum_probs=25.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---C------CcEEEEeccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---N------YDVYDLELTT  261 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~------~~i~~l~~~~  261 (504)
                      +.++||||+|||+++..+|...   +      ..+++++...
T Consensus        22 ~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~   63 (226)
T cd01393          22 TEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG   63 (226)
T ss_pred             EEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence            7899999999999999987653   2      4566666544

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.

>PRK14529 adenylate kinase; Provisional

Probab=96.88  E-value=0.00075  Score=65.22  Aligned_cols=27  Identities=30%  Similarity=0.481  Sum_probs=24.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      ++|.||||+|||++++.||..++++.+
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~~i   29 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLAHI   29 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCc
Confidence            688999999999999999999998755

>TIGR01351 adk adenylate kinases

Probab=96.86  E-value=0.00073  Score=64.65  Aligned_cols=28  Identities=32%  Similarity=0.543  Sum_probs=25.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      +++.||||+|||++++.||..+|+..+.
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g~~~is   29 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYGLPHIS   29 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeee
Confidence            6889999999999999999999877665

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.

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.85  E-value=0.00077  Score=64.76  Aligned_cols=29  Identities=31%  Similarity=0.484  Sum_probs=25.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++++||||+|||++++.||..+++..+.+
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~~~~~is~   31 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKYGIPHIST   31 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence            78999999999999999999999776653

>TIGR01069 mutS2 MutS2 family protein

Probab=96.84  E-value=0.012  Score=66.89  Aligned_cols=23  Identities=17%  Similarity=0.381  Sum_probs=20.8

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +.++|.||.|+|||++.+.++..
T Consensus       323 ~~liItGpNg~GKSTlLK~i~~~  345 (771)
T TIGR01069       323 RVLAITGPNTGGKTVTLKTLGLL  345 (771)
T ss_pred             eEEEEECCCCCCchHHHHHHHHH
Confidence            56899999999999999999865

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.84  E-value=0.014  Score=56.87  Aligned_cols=125  Identities=18%  Similarity=0.296  Sum_probs=76.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCC---cEEEEeccc---------------cCChHHHH-----------HHHHhc--
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNY---DVYDLELTT---------------VQDNSELR-----------SLLIDT--  275 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~---~i~~l~~~~---------------~~~~~~l~-----------~l~~~~--  275 (504)
                      -.+++.||+|||||+++..+-..+..   +++.+.-..               +...+++.           +.....  
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~~~n~~~~~~i~p~~i~~~~~~e~le~~l~~~k~~I~k~~~k~~~   93 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITPEYNNEYYKYIWPDHIFKVFDKEELEYILIRQKEKIEKYIKKSPQ   93 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEecCCchhhhhhcchhhccccccHHHHHHHHHHHHHHHHHHhhhhcc
Confidence            35788999999999999999876643   222221100               01111111           111111  


Q ss_pred             ---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEe
Q 037859          276 ---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFT  352 (504)
Q Consensus       276 ---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~t  352 (504)
                         ..+++|+|||+-.-                                 ......+..+++.  |    ..-++-+|+.
T Consensus        94 ~k~~~~~LiIlDD~~~~---------------------------------~~k~~~l~~~~~~--g----RH~~is~i~l  134 (241)
T PF04665_consen   94 KKNNPRFLIILDDLGDK---------------------------------KLKSKILRQFFNN--G----RHYNISIIFL  134 (241)
T ss_pred             cCCCCCeEEEEeCCCCc---------------------------------hhhhHHHHHHHhc--c----cccceEEEEE
Confidence               23789999996320                                 0112245666652  2    2234678888


Q ss_pred             cCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          353 TNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       353 TN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      +...-.|||.++.  -++..+-+. -+...++.|++.+...
T Consensus       135 ~Q~~~~lp~~iR~--n~~y~i~~~-~s~~dl~~i~~~~~~~  172 (241)
T PF04665_consen  135 SQSYFHLPPNIRS--NIDYFIIFN-NSKRDLENIYRNMNIK  172 (241)
T ss_pred             eeecccCCHHHhh--cceEEEEec-CcHHHHHHHHHhcccc
Confidence            8888899999876  788777775 5777888888887543

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

>PRK04182 cytidylate kinase; Provisional

Probab=96.84  E-value=0.0008  Score=62.15  Aligned_cols=28  Identities=32%  Similarity=0.557  Sum_probs=25.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      +++.|+||||||++++.+|..+++++++
T Consensus         3 I~i~G~~GsGKstia~~la~~lg~~~id   30 (180)
T PRK04182          3 ITISGPPGSGKTTVARLLAEKLGLKHVS   30 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCcEec
Confidence            6789999999999999999999998776

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=96.84  E-value=0.0023  Score=63.12  Aligned_cols=64  Identities=19%  Similarity=0.364  Sum_probs=52.0

Q ss_pred             cccccccCCCCCcHHHHHHHHH------HhcCCcEEEEeccccCChHHHHHHHHhc-----------------cCCeEEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMA------NFLNYDVYDLELTTVQDNSELRSLLIDT-----------------SSKSILV  282 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA------~~l~~~i~~l~~~~~~~~~~l~~l~~~~-----------------~~~~Il~  282 (504)
                      +..+||.||.|.|||.||+-|-      +.+.-+++.++|..+.++..+..+|...                 ....++|
T Consensus       208 r~p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~~r~gllrsadggmlf  287 (531)
T COG4650         208 RAPILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARESREGLLRSADGGMLF  287 (531)
T ss_pred             cCCeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchhhhhhhhccCCCceEe
Confidence            5679999999999999999884      3457789999999998877777777543                 2457999


Q ss_pred             Eeccccc
Q 037859          283 IEDIDCS  289 (504)
Q Consensus       283 iDeiD~~  289 (504)
                      +|||-.+
T Consensus       288 ldeigel  294 (531)
T COG4650         288 LDEIGEL  294 (531)
T ss_pred             hHhhhhc
Confidence            9999764

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.84  E-value=0.0046  Score=60.18  Aligned_cols=32  Identities=28%  Similarity=0.304  Sum_probs=22.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      .-+++.||||||||+++..++..+   +....++.
T Consensus        25 ~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~   59 (230)
T PRK08533         25 SLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS   59 (230)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            348899999999999976554433   44555554

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=96.82  E-value=0.0055  Score=69.87  Aligned_cols=63  Identities=14%  Similarity=0.345  Sum_probs=39.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHh-----cCC----------cEEEEeccccCCh--------------HHHHHHHHhcc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANF-----LNY----------DVYDLELTTVQDN--------------SELRSLLIDTS  276 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~-----l~~----------~i~~l~~~~~~~~--------------~~l~~l~~~~~  276 (504)
                      .+.+++.||.+.|||++.+.++-.     .|+          ++++--+..+++.              ..+..++..+.
T Consensus       327 ~~~~iITGpN~gGKTt~lktigl~~~maq~G~~vpa~~~~~i~~~~~i~~~ig~~~si~~~lStfS~~m~~~~~Il~~~~  406 (782)
T PRK00409        327 KTVLVITGPNTGGKTVTLKTLGLAALMAKSGLPIPANEPSEIPVFKEIFADIGDEQSIEQSLSTFSGHMTNIVRILEKAD  406 (782)
T ss_pred             ceEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcccCCCccccccceEEEecCCccchhhchhHHHHHHHHHHHHHHhCC
Confidence            456899999999999999988642     232          2221111111111              12344455556


Q ss_pred             CCeEEEEecccc
Q 037859          277 SKSILVIEDIDC  288 (504)
Q Consensus       277 ~~~Il~iDeiD~  288 (504)
                      .+++++|||+-.
T Consensus       407 ~~sLvLlDE~~~  418 (782)
T PRK00409        407 KNSLVLFDELGA  418 (782)
T ss_pred             cCcEEEecCCCC
Confidence            899999999865

>PLN02199 shikimate kinase

Probab=96.82  E-value=0.0011  Score=66.30  Aligned_cols=40  Identities=33%  Similarity=0.523  Sum_probs=33.7

Q ss_pred             HHHHhh-cccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          220 EIKKDL-KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       220 ~i~~~l-~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      +|..++ .+.++|.|++|+|||++++.+|..+|+++++.|.
T Consensus        95 ~i~~~l~~~~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDtD~  135 (303)
T PLN02199         95 EVKPYLNGRSMYLVGMMGSGKTTVGKLMSKVLGYTFFDCDT  135 (303)
T ss_pred             HHHHHcCCCEEEEECCCCCCHHHHHHHHHHHhCCCEEehHH
Confidence            444444 5679999999999999999999999999998763

>PLN02200 adenylate kinase family protein

Probab=96.80  E-value=0.00089  Score=65.33  Aligned_cols=29  Identities=21%  Similarity=0.372  Sum_probs=25.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      .-+++.||||+|||++++.+|..+|+..+
T Consensus        44 ~ii~I~G~PGSGKsT~a~~La~~~g~~hi   72 (234)
T PLN02200         44 FITFVLGGPGSGKGTQCEKIVETFGFKHL   72 (234)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            45788999999999999999999987643

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=96.79  E-value=0.0055  Score=59.28  Aligned_cols=62  Identities=21%  Similarity=0.360  Sum_probs=40.8

Q ss_pred             ccccccCCCCCcHHHHHHHHHH-hc----CCc---------EE---EEecc---ccC--------ChHHHHHHHHhccCC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN-FL----NYD---------VY---DLELT---TVQ--------DNSELRSLLIDTSSK  278 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~-~l----~~~---------i~---~l~~~---~~~--------~~~~l~~l~~~~~~~  278 (504)
                      +-++|.||.|+|||++.+.++. .+    |..         ++   .....   ++.        .-.++..++..+..+
T Consensus        32 ~~~~itG~N~~GKStll~~i~~~~~la~~G~~v~a~~~~~~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il~~~~~~  111 (222)
T cd03287          32 YCQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSATLSIFDSVLTRMGASDSIQHGMSTFMVELSETSHILSNCTSR  111 (222)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHHhCCCEEEcCceEEeccceEEEEecCccccccccchHHHHHHHHHHHHHhCCCC
Confidence            4588999999999999999987 21    221         11   01111   111        113456777778899


Q ss_pred             eEEEEecccc
Q 037859          279 SILVIEDIDC  288 (504)
Q Consensus       279 ~Il~iDeiD~  288 (504)
                      ++++|||+-.
T Consensus       112 sLvllDE~~~  121 (222)
T cd03287         112 SLVILDELGR  121 (222)
T ss_pred             eEEEEccCCC
Confidence            9999999865

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

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.79  E-value=0.00062  Score=58.94  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=20.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++|.|+||+||||+++.|+..+
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999987

...

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=96.78  E-value=0.0066  Score=68.74  Aligned_cols=40  Identities=28%  Similarity=0.522  Sum_probs=32.0

Q ss_pred             cccChhHHHHHHHhhc-ccccccCCCCCcHHHHHHHHHHhc
Q 037859          211 LAMETKKKEEIKKDLK-KGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l~-rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ..+.+++++.+..... +-.++.|+||||||++++++...+
T Consensus       322 ~~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l~~i~~~~  362 (720)
T TIGR01448       322 KGLSEEQKQALDTAIQHKVVILTGGPGTGKTTITRAIIELA  362 (720)
T ss_pred             CCCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4578888888877763 447789999999999999986655

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.

>TIGR02012 tigrfam_recA protein RecA

Probab=96.77  E-value=0.0042  Score=63.21  Aligned_cols=63  Identities=13%  Similarity=0.238  Sum_probs=38.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEEecccc---------------------CChHHHHHHH---HhccCCeE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTV---------------------QDNSELRSLL---IDTSSKSI  280 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~---------------------~~~~~l~~l~---~~~~~~~I  280 (504)
                      -+++|||||||||+|+..++...   +..+.+++....                     ...++....+   .......+
T Consensus        57 iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~~~~~~l  136 (321)
T TIGR02012        57 IIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDI  136 (321)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhccCCcE
Confidence            37899999999999988765433   455555544321                     1111122222   22246789


Q ss_pred             EEEecccccc
Q 037859          281 LVIEDIDCSL  290 (504)
Q Consensus       281 l~iDeiD~~~  290 (504)
                      |+||-+-++.
T Consensus       137 IVIDSv~al~  146 (321)
T TIGR02012       137 IVVDSVAALV  146 (321)
T ss_pred             EEEcchhhhc
Confidence            9999998864

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.

>PRK04040 adenylate kinase; Provisional

Probab=96.77  E-value=0.0009  Score=63.05  Aligned_cols=29  Identities=31%  Similarity=0.566  Sum_probs=24.7

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc--CCcEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL--NYDVY  255 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l--~~~i~  255 (504)
                      +-++++|+||||||++++.++..+  +++++
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~~~~~~~   33 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLKEDYKIV   33 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhccCCeEE
Confidence            457899999999999999999999  55553

>PRK14527 adenylate kinase; Provisional

Probab=96.77  E-value=0.00072  Score=63.67  Aligned_cols=30  Identities=33%  Similarity=0.541  Sum_probs=25.7

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      .-++++||||+|||++++.+|..++...+.
T Consensus         7 ~~i~i~G~pGsGKsT~a~~La~~~~~~~is   36 (191)
T PRK14527          7 KVVIFLGPPGAGKGTQAERLAQELGLKKLS   36 (191)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCCCC
Confidence            348899999999999999999999876443

>PRK13808 adenylate kinase; Provisional

Probab=96.77  E-value=0.0027  Score=64.79  Aligned_cols=29  Identities=28%  Similarity=0.477  Sum_probs=25.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|+||||+|||++++.||..+|+..+.+
T Consensus         3 Iiv~GpPGSGK~T~a~~LA~~ygl~~is~   31 (333)
T PRK13808          3 LILLGPPGAGKGTQAQRLVQQYGIVQLST   31 (333)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceecc
Confidence            78999999999999999999998765543

>PRK01184 hypothetical protein; Provisional

Probab=96.75  E-value=0.001  Score=62.15  Aligned_cols=29  Identities=24%  Similarity=0.298  Sum_probs=24.4

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      -++|+||||+||||+++ ++.++|++++..
T Consensus         3 ~i~l~G~~GsGKsT~a~-~~~~~g~~~i~~   31 (184)
T PRK01184          3 IIGVVGMPGSGKGEFSK-IAREMGIPVVVM   31 (184)
T ss_pred             EEEEECCCCCCHHHHHH-HHHHcCCcEEEh
Confidence            36789999999999987 888999887654

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.75  E-value=0.0089  Score=63.51  Aligned_cols=48  Identities=29%  Similarity=0.433  Sum_probs=41.5

Q ss_pred             ccccccccChhHHHHHHHhh--ccc-ccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          206 ATFDTLAMETKKKEEIKKDL--KKG-YLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l--~rg-~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      -.|+.+++.+...+.+...+  |.| +|+.||.|+|||++..++.++++.+
T Consensus       235 l~l~~Lg~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~  285 (500)
T COG2804         235 LDLEKLGMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNTP  285 (500)
T ss_pred             CCHHHhCCCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcCC
Confidence            35899999999999998888  888 4668999999999999999988654

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.75  E-value=0.00091  Score=61.19  Aligned_cols=26  Identities=42%  Similarity=0.667  Sum_probs=20.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      |.|+|+||||||||+++||.. |++++
T Consensus         2 I~i~G~~stGKTTL~~~L~~~-g~~~v   27 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR-GYPVV   27 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH-T-EEE
T ss_pred             EEEECCCCCCHHHHHHHHHHc-CCeEE
Confidence            578999999999999999998 77655

>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=96.74  E-value=0.001  Score=63.01  Aligned_cols=34  Identities=35%  Similarity=0.540  Sum_probs=26.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEeccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT  261 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  261 (504)
                      -|+++||+|||||.++-++|+.+|.+++.+|--.
T Consensus         3 v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~Driq   36 (233)
T PF01745_consen    3 VYLIVGPTGTGKTALAIALAQKTGAPVISLDRIQ   36 (233)
T ss_dssp             EEEEE-STTSSHHHHHHHHHHHH--EEEEE-SGG
T ss_pred             EEEEECCCCCChhHHHHHHHHHhCCCEEEeccee
Confidence            3789999999999999999999999999887543

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

>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=96.74  E-value=0.00081  Score=60.72  Aligned_cols=26  Identities=31%  Similarity=0.522  Sum_probs=22.7

Q ss_pred             ccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          231 LYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       231 L~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      +.||||+|||++++.||..+|+..+.
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~~~is   26 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGLVHIS   26 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTSEEEE
T ss_pred             CcCCCCCChHHHHHHHHHhcCcceec
Confidence            57999999999999999999876544

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 ....

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.74  E-value=0.0012  Score=59.63  Aligned_cols=30  Identities=40%  Similarity=0.543  Sum_probs=25.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      ++++|+||+|||++++.++..+   +.+.+.++
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~   34 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLD   34 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEc
Confidence            5789999999999999999998   65555553

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.73  E-value=0.0069  Score=65.22  Aligned_cols=23  Identities=43%  Similarity=0.625  Sum_probs=20.2

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+.|+||+|+|||+++..||..+
T Consensus       352 vIaLVGPtGvGKTTtaakLAa~l  374 (559)
T PRK12727        352 VIALVGPTGAGKTTTIAKLAQRF  374 (559)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47789999999999999998754

>PRK13764 ATPase; Provisional

Probab=96.72  E-value=0.0011  Score=72.62  Aligned_cols=47  Identities=32%  Similarity=0.579  Sum_probs=37.9

Q ss_pred             CCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcC
Q 037859          204 HPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      .+.+++.+.+++..++.+... ++++|++||||+||||+++|++.++.
T Consensus       236 ~~~~Le~l~l~~~l~~~l~~~-~~~ILIsG~TGSGKTTll~AL~~~i~  282 (602)
T PRK13764        236 VKLSLEDYNLSEKLKERLEER-AEGILIAGAPGAGKSTFAQALAEFYA  282 (602)
T ss_pred             CCCCHHHhCCCHHHHHHHHhc-CCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            345688888887666655433 67899999999999999999998875

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.72  E-value=0.0014  Score=65.00  Aligned_cols=52  Identities=31%  Similarity=0.523  Sum_probs=40.4

Q ss_pred             eeeecCCCccccccccChhHHHHHHHhhccc-ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          198 SHVFFEHPATFDTLAMETKKKEEIKKDLKKG-YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       198 ~~~~~~~p~~f~~~~~~~~~k~~i~~~l~rg-~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      ..+| ....+|+.+.+++-.++  +...++| +|+.||.|+|||+...||-+++|.
T Consensus        99 R~Ip-~~i~~~e~LglP~i~~~--~~~~~~GLILVTGpTGSGKSTTlAamId~iN~  151 (353)
T COG2805          99 RLIP-SKIPTLEELGLPPIVRE--LAESPRGLILVTGPTGSGKSTTLAAMIDYINK  151 (353)
T ss_pred             eccC-ccCCCHHHcCCCHHHHH--HHhCCCceEEEeCCCCCcHHHHHHHHHHHHhc
Confidence            3445 44557999999987666  3344889 566799999999999999999864

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=96.72  E-value=0.0017  Score=66.21  Aligned_cols=55  Identities=27%  Similarity=0.438  Sum_probs=43.6

Q ss_pred             cc-ccccChhHHHHHHHhh----------cccccccCCCCCcHHHHHHHHHHhc-CCcEEEEecccc
Q 037859          208 FD-TLAMETKKKEEIKKDL----------KKGYLLYGPPGTGKSTMIAAMANFL-NYDVYDLELTTV  262 (504)
Q Consensus       208 f~-~~~~~~~~k~~i~~~l----------~rg~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~~~~~  262 (504)
                      |+ .+-+-++..++|++++          ++-++|.||+|+|||++++.+-+.+ .+++|.+..+-+
T Consensus        59 f~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y~~Y~l~~~Pm  125 (358)
T PF08298_consen   59 FEDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEEYPIYTLKGCPM  125 (358)
T ss_pred             ccccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhheEEEEEecCCcc
Confidence            44 5667778889999988          5668899999999999999998877 457777754443

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

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

Probab=96.72  E-value=0.0036  Score=61.62  Aligned_cols=25  Identities=32%  Similarity=0.584  Sum_probs=22.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -+++.||+|||||+|++.+++.+..
T Consensus        18 r~~I~G~~G~GKTTLlr~I~n~l~~   42 (249)
T cd01128          18 RGLIVAPPKAGKTTLLQSIANAITK   42 (249)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcccc
Confidence            3899999999999999999998764

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.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=96.70  E-value=0.0012  Score=60.56  Aligned_cols=29  Identities=31%  Similarity=0.584  Sum_probs=26.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +.++|+||+|||++++.+|..++++++..
T Consensus         3 I~i~G~~GSGKstia~~la~~lg~~~~~~   31 (171)
T TIGR02173         3 ITISGPPGSGKTTVAKILAEKLSLKLISA   31 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCceecH
Confidence            57899999999999999999999987653

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=96.70  E-value=0.0051  Score=59.23  Aligned_cols=62  Identities=24%  Similarity=0.348  Sum_probs=38.8

Q ss_pred             ccccccCCCCCcHHHHHHHHHH-----hcCCcE---------EEEeccccCCh--------------HHHHHHHHhccCC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN-----FLNYDV---------YDLELTTVQDN--------------SELRSLLIDTSSK  278 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~-----~l~~~i---------~~l~~~~~~~~--------------~~l~~l~~~~~~~  278 (504)
                      +-++|.||.|+|||++.+.+|.     ..+..+         +.--...+...              .++..++....++
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~~~~~l~~~g~~vp~~~~~i~~~~~i~~~~~~~~~ls~g~s~f~~e~~~l~~~l~~~~~~  110 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVALIALLAQIGSFVPASKAEIGVVDRIFTRIGASDDLAGGRSTFMVEMVETANILNNATER  110 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHHHHHHHhccCCeeccccceecceeeEeccCCchhhhccCcchHHHHHHHHHHHHHhCCCC
Confidence            4578999999999999999864     223221         11001111100              1355566666789


Q ss_pred             eEEEEecccc
Q 037859          279 SILVIEDIDC  288 (504)
Q Consensus       279 ~Il~iDeiD~  288 (504)
                      ++++|||.-.
T Consensus       111 ~llllDEp~~  120 (216)
T cd03284         111 SLVLLDEIGR  120 (216)
T ss_pred             eEEEEecCCC
Confidence            9999999843

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clam

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=96.69  E-value=0.01  Score=54.42  Aligned_cols=24  Identities=25%  Similarity=0.480  Sum_probs=18.8

Q ss_pred             ccccccCCCCCcHHH-HHHHHHHhc
Q 037859          227 KGYLLYGPPGTGKST-MIAAMANFL  250 (504)
Q Consensus       227 rg~LL~GPpGtGKTs-la~aiA~~l  250 (504)
                      +.+++.||+|||||. ++..+...+
T Consensus        25 ~~~~i~~~~GsGKT~~~~~~~~~~~   49 (201)
T smart00487       25 RDVILAAPTGSGKTLAALLPALEAL   49 (201)
T ss_pred             CcEEEECCCCCchhHHHHHHHHHHh
Confidence            689999999999999 555555444

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.69  E-value=0.011  Score=62.83  Aligned_cols=34  Identities=35%  Similarity=0.428  Sum_probs=26.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTT  261 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~  261 (504)
                      -++|.||+|+|||+++..+|..+     +..+..+++..
T Consensus       223 ~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~  261 (424)
T PRK05703        223 VVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDT  261 (424)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCc
Confidence            47899999999999999988754     35566666544

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.68  E-value=0.0046  Score=63.01  Aligned_cols=65  Identities=15%  Similarity=0.311  Sum_probs=41.3

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecccc---------------------CChHHHHHHH---Hhcc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTV---------------------QDNSELRSLL---IDTS  276 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~---------------------~~~~~l~~l~---~~~~  276 (504)
                      |+|  +++|||||||||+|+-.++...   +....+++...-                     .+.+++..++   ....
T Consensus        53 p~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~s~  132 (325)
T cd00983          53 PKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVRSG  132 (325)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHhcc
Confidence            455  7899999999999999876433   556666655321                     1112222222   2224


Q ss_pred             CCeEEEEecccccc
Q 037859          277 SKSILVIEDIDCSL  290 (504)
Q Consensus       277 ~~~Il~iDeiD~~~  290 (504)
                      ...+|+||-+-+++
T Consensus       133 ~~~lIVIDSvaal~  146 (325)
T cd00983         133 AVDLIVVDSVAALV  146 (325)
T ss_pred             CCCEEEEcchHhhc
Confidence            67899999998865

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.67  E-value=0.0012  Score=61.96  Aligned_cols=29  Identities=28%  Similarity=0.442  Sum_probs=24.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      -+.|.||+|+||||+++.||..++.+++.
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~~~~~~~   32 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQREQTQLLV   32 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCCeEEE
Confidence            47789999999999999999988766544

>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=96.66  E-value=0.0047  Score=55.46  Aligned_cols=60  Identities=22%  Similarity=0.281  Sum_probs=39.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCC-----------cEEEEeccccCChHHHHHHHHh---ccCCeEEEEeccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNY-----------DVYDLELTTVQDNSELRSLLID---TSSKSILVIEDIDCS  289 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~-----------~i~~l~~~~~~~~~~l~~l~~~---~~~~~Il~iDeiD~~  289 (504)
                      .-+.+.||+|+|||+|++++++.+..           .+.++.  . -+..+.+++...   ..+|.|+++||-..-
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~~~~~i~~~~--~-lS~G~~~rv~laral~~~p~illlDEP~~~  100 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGSTVKIGYFE--Q-LSGGEKMRLALAKLLLENPNLLLLDEPTNH  100 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCCCCCceEEEECCeEEEEEEc--c-CCHHHHHHHHHHHHHhcCCCEEEEeCCccC
Confidence            44789999999999999999997632           111111  1 223334443322   258999999998764

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.

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.66  E-value=0.0041  Score=64.24  Aligned_cols=35  Identities=23%  Similarity=0.402  Sum_probs=27.6

Q ss_pred             HHHHHHHhh---ccc--ccccCCCCCcHHHHHHHHHHhcC
Q 037859          217 KKEEIKKDL---KKG--YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       217 ~k~~i~~~l---~rg--~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      .-.++++.+   .+|  .|+.||||||||+|++.+|+.+.
T Consensus       119 ~~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~  158 (380)
T PRK12608        119 LSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVA  158 (380)
T ss_pred             hhHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            344566666   344  69999999999999999998773

>PRK14526 adenylate kinase; Provisional

Probab=96.65  E-value=0.0014  Score=62.98  Aligned_cols=28  Identities=39%  Similarity=0.730  Sum_probs=24.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      ++|.||||+|||++++.+|..+++..+.
T Consensus         3 i~l~G~pGsGKsT~a~~La~~~~~~~is   30 (211)
T PRK14526          3 LVFLGPPGSGKGTIAKILSNELNYYHIS   30 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceee
Confidence            6889999999999999999998876543

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.65  E-value=0.029  Score=57.04  Aligned_cols=98  Identities=14%  Similarity=0.139  Sum_probs=53.0

Q ss_pred             CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEE-EEecC-
Q 037859          277 SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERII-VFTTN-  354 (504)
Q Consensus       277 ~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~iv-I~tTN-  354 (504)
                      .|.++-||++.+++....-+..                  ....-....-.....|++.+.|-.+-..+.+++ +.+|. 
T Consensus       156 ~PVL~avD~~n~l~~~S~Y~~~------------------~~~~I~~~~L~l~~~f~~~~s~~~~~~nG~~v~~l~~t~~  217 (309)
T PF10236_consen  156 PPVLVAVDGFNALFGPSAYRDP------------------DFKPIHPHDLTLVRLFLDLLSGKRDFKNGAVVTALAATSV  217 (309)
T ss_pred             CceEEEehhhHHhhCCccccCC------------------CCccccHHHhhHHHHHHHHhcCccccCCCeEEEEEecccc
Confidence            4678889999998753222110                  000011122234556666655544433443432 44442 


Q ss_pred             --CCC--CCChhhhcCCC------ce-------------eEEEecCCCHHHHHHHHHHhcC
Q 037859          355 --YVD--KLDPALIRRGR------MD-------------KHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       355 --~~e--~Ld~ALlRpGR------~d-------------~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                        .+.  .++.+|....-      |.             ..|+++..+.++.+.+++.|..
T Consensus       218 ~~~~~~~~l~~~L~~~~~~~~~dPy~~~d~~~~~~l~~~~~i~v~~~s~~E~~~ll~yy~~  278 (309)
T PF10236_consen  218 SNAPKSPTLPVALGGKEGFPHLDPYVKRDPRVAESLKGVKPIEVPRLSKEEARSLLEYYAD  278 (309)
T ss_pred             ccccCCccchhhhccccCCCCCCCcccccHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHH
Confidence              222  56667665211      10             1678888899999999888864

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>PRK06696 uridine kinase; Validated

Probab=96.65  E-value=0.0031  Score=60.97  Aligned_cols=36  Identities=17%  Similarity=0.238  Sum_probs=29.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ  263 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  263 (504)
                      -+.+.|+||+||||+|+.||..+   |.+++.+.+.++-
T Consensus        24 iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~   62 (223)
T PRK06696         24 RVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDFH   62 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecccccc
Confidence            36689999999999999999998   6677776666554

>PF06431 Polyoma_lg_T_C: Polyomavirus large T antigen C-terminus; InterPro: IPR010932 The group of polyomaviruses is formed by the homonymous murine virus (Py) as well as other representative members such as the simian virus 40 (SV40) and the human BK and JC viruses []

Probab=96.64  E-value=0.0049  Score=62.76  Aligned_cols=121  Identities=21%  Similarity=0.285  Sum_probs=69.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCeEEEEeccccccccccccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDED  305 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~  305 (504)
                      +|.+||-||-.|||||+|.|+-+.+|-....+++..    ++|.--+.-+-..-.+++||+--      +...       
T Consensus       155 kRy~lFkGPvNsGKTTlAAAlLdL~gG~~LNvN~p~----dkl~FELG~AiDQfmVvFEDVKG------q~~~-------  217 (417)
T PF06431_consen  155 KRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPP----DKLNFELGCAIDQFMVVFEDVKG------QPSD-------  217 (417)
T ss_dssp             B-EEEEE-STTSSHHHHHHHHHHHH-EEEE-TSS-T----TTHHHHHCCCTT-SEEEEEEE--------SSTT-------
T ss_pred             ceeEEEecCcCCchHHHHHHHHHhcCCceeecCCCh----hhcchhhheeeceEEEEEEecCC------CcCC-------
Confidence            788999999999999999999999886666555543    44555555666788999999843      1100       


Q ss_pred             ccccCcccccccccCCCcchhhHHHHHhhhhcCcccc-----CCCce-----EEEEecCCCCCCChhhhcCCCceeEEEe
Q 037859          306 KEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA-----SGEER-----IIVFTTNYVDKLDPALIRRGRMDKHIEM  375 (504)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~-----~~~~~-----ivI~tTN~~e~Ld~ALlRpGR~d~~I~~  375 (504)
                                 ...-..+.+-..+..|-..|||....     ....+     --|.|+|.. .||..+.-  ||-..+.|
T Consensus       218 -----------~~~Lp~G~G~~NLDNLRD~LDG~V~VNLErKH~NK~sQiFPPgIvTmNeY-~iP~Tv~v--Rf~~~~~F  283 (417)
T PF06431_consen  218 -----------NKDLPPGQGMNNLDNLRDYLDGAVKVNLERKHQNKRSQIFPPGIVTMNEY-KIPQTVKV--RFCKVLDF  283 (417)
T ss_dssp             -----------TTT----SHHHHHHTTHHHHH-SS-EEEECSSSEEEEE----EEEEESS--B--HHHHT--TEEEEEE-
T ss_pred             -----------CCCCCCCCCcccchhhhhhccCceeechhhhhcccccccCCCceEeeccc-cCCcceee--eeEeeEec
Confidence                       00001122344567777888875311     11111     257888864 57888888  99888887


Q ss_pred             cC
Q 037859          376 SY  377 (504)
Q Consensus       376 ~~  377 (504)
                      ..
T Consensus       284 ~~  285 (417)
T PF06431_consen  284 RP  285 (417)
T ss_dssp             --
T ss_pred             cc
Confidence            53

Their large T antigen (T-ag) protein binds to and activates DNA replication from the origin of DNA replication (ori). Insofar as is known, the T-ag binds to the origin first as a monomer to its pentanucleotide recognition element. The monomers are then thought to assemble into hexamers and double hexamers, which constitute the form that is active in initiation of DNA replication. When bound to the ori, T-ag double hexamers encircle DNA []. T-ag is a multidomain protein that contains an N-terminal J domain, which mediates protein interactions (see PDOC00553 from PROSITEDOC, IPR001623 from INTERPRO), a central origin-binding domain (OBD), and a C-terminal superfamily 3 helicase domain (see PDOC51206 from PROSITEDOC, IPR010932 from INTERPRO) []. This entry represents the helicase domain of LTag, which assembles into a hexameric structure containing a positively charged central channel that can bind both single- and double-stranded DNA []. ATP binding and hydrolysis trigger large conformational changes which are thought to be coupled to the melting of origin DNA and the unwinding of duplex DNA []. These conformational changes cause the angles and orientations between regions of a monomer to alter, creating what was described as an "iris"-like motion in the hexamer. In addition to this, six beta hairpins on the channel surface move longitudinally along the central channel, possibly serving as a motor for pulling DNA into the LTag double hexamer for unwinding.; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 2H1L_H 1SVO_A 1SVM_E 1SVL_B 1N25_A 4E2I_K.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.64  E-value=0.0014  Score=61.24  Aligned_cols=26  Identities=42%  Similarity=0.721  Sum_probs=22.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      -+++.||||+||||+|+.||+.++.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i~   27 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGLP   27 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCc
Confidence            36889999999999999999995543

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.62  E-value=0.0013  Score=66.26  Aligned_cols=29  Identities=34%  Similarity=0.255  Sum_probs=24.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc-CCcEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL-NYDVY  255 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l-~~~i~  255 (504)
                      +-++|.|||||||||+|+.++..+ +...+
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~~~~~~l   32 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKNPKAVNV   32 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHCCCCEEE
Confidence            347889999999999999999998 54433

>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=96.62  E-value=0.0049  Score=57.45  Aligned_cols=63  Identities=21%  Similarity=0.271  Sum_probs=37.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCc--EEEEe---cccc-----CChHHHHHHHHh---ccCCeEEEEecccccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYD--VYDLE---LTTV-----QDNSELRSLLID---TSSKSILVIEDIDCSL  290 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~--i~~l~---~~~~-----~~~~~l~~l~~~---~~~~~Il~iDeiD~~~  290 (504)
                      -+.|.||.|+|||||++.|++.+...  -+.++   ...+     -+..+-+++-..   ...|.++++||--.-+
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq~qrv~laral~~~p~lllLDEPts~L  102 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGELQRVAIAAALLRNATFYLFDEPSAYL  102 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHHHHHHHHHHHHhcCCCEEEEECCcccC
Confidence            47799999999999999999876321  11111   1100     122222222221   2478999999986643

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.

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

Probab=96.62  E-value=0.0022  Score=63.87  Aligned_cols=61  Identities=23%  Similarity=0.405  Sum_probs=33.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecccc----------CChHHHHHHHHhc-----cCCeEEEEeccccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTV----------QDNSELRSLLIDT-----SSKSILVIEDIDCS  289 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~----------~~~~~l~~l~~~~-----~~~~Il~iDeiD~~  289 (504)
                      ++|+|.||+|||++|+.|+.++   +..+..++-..+          .....+|..+...     ....||++|+..-+
T Consensus         4 iil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~ls~~~iVI~Dd~nYi   82 (270)
T PF08433_consen    4 IILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERALSKDTIVILDDNNYI   82 (270)
T ss_dssp             EEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHHTT-SEEEE-S---S
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhhccCeEEEEeCCchH
Confidence            6789999999999999999875   556665553222          1123344333322     45689999988753

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

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.62  E-value=0.0087  Score=56.07  Aligned_cols=60  Identities=17%  Similarity=0.355  Sum_probs=37.9

Q ss_pred             ccccCCCCCcHHHHHHHHHH-----hcCCcE---------E-----EEeccc-cC--------ChHHHHHHHHhccCCeE
Q 037859          229 YLLYGPPGTGKSTMIAAMAN-----FLNYDV---------Y-----DLELTT-VQ--------DNSELRSLLIDTSSKSI  280 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~-----~l~~~i---------~-----~l~~~~-~~--------~~~~l~~l~~~~~~~~I  280 (504)
                      ++|+||.|.|||++.+.++-     ..|..+         +     .+.... +.        .-.++..++..+..|.+
T Consensus         2 ~~ltG~N~~GKst~l~~i~~~~~la~~G~~v~a~~~~~~~~d~il~~~~~~d~~~~~~s~fs~~~~~l~~~l~~~~~~~l   81 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVGLIVIMAQIGSFVPAESAELPVFDRIFTRIGASDSLAQGLSTFMVEMKETANILKNATENSL   81 (185)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHHHhCCCeeehheEecccceEEEEeCCCCchhccccHHHHHHHHHHHHHHhCCCCeE
Confidence            67999999999999999982     223221         1     111111 00        11234555555678999


Q ss_pred             EEEecccc
Q 037859          281 LVIEDIDC  288 (504)
Q Consensus       281 l~iDeiD~  288 (504)
                      +++||.-.
T Consensus        82 lllDEp~~   89 (185)
T smart00534       82 VLLDELGR   89 (185)
T ss_pred             EEEecCCC
Confidence            99999966

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.62  E-value=0.0053  Score=63.95  Aligned_cols=61  Identities=21%  Similarity=0.339  Sum_probs=40.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC-----------------------ChHHHHHHHHhccCCeEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ-----------------------DNSELRSLLIDTSSKSILV  282 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~-----------------------~~~~l~~l~~~~~~~~Il~  282 (504)
                      +||+||||+|||+|+..+|..+   +.++++++...-.                       .-..+.+.+ ....+.+|+
T Consensus        85 vLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~~i-~~~~~~lVV  163 (372)
T cd01121          85 ILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAETNLEDILASI-EELKPDLVI  163 (372)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcCHHHHHHHHHHcCCCcccEEEEccCcHHHHHHHH-HhcCCcEEE
Confidence            7899999999999999998765   3466666543210                       001122222 123688999


Q ss_pred             Eecccccc
Q 037859          283 IEDIDCSL  290 (504)
Q Consensus       283 iDeiD~~~  290 (504)
                      ||+|..++
T Consensus       164 IDSIq~l~  171 (372)
T cd01121         164 IDSIQTVY  171 (372)
T ss_pred             EcchHHhh
Confidence            99998864

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.

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.61  E-value=0.0055  Score=65.49  Aligned_cols=62  Identities=26%  Similarity=0.382  Sum_probs=40.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC--------------------ChHHHHHHHHh--ccCCeEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ--------------------DNSELRSLLID--TSSKSILVI  283 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~--------------------~~~~l~~l~~~--~~~~~Il~i  283 (504)
                      +||+||||+|||+|+..+|...   +.++++++...-.                    ....+..++..  ...+.+|+|
T Consensus        83 ~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~~~~lVVI  162 (446)
T PRK11823         83 VLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESASQIKLRAERLGLPSDNLYLLAETNLEAILATIEEEKPDLVVI  162 (446)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccHHHHHHHHHHcCCChhcEEEeCCCCHHHHHHHHHhhCCCEEEE
Confidence            7899999999999999998765   5677766653210                    00111222221  136789999


Q ss_pred             ecccccc
Q 037859          284 EDIDCSL  290 (504)
Q Consensus       284 DeiD~~~  290 (504)
                      |.|..+.
T Consensus       163 DSIq~l~  169 (446)
T PRK11823        163 DSIQTMY  169 (446)
T ss_pred             echhhhc
Confidence            9998764

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=96.59  E-value=0.005  Score=58.76  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=19.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      +-++|.||.|+|||++.+.++.
T Consensus        30 ~~~~l~G~n~~GKstll~~i~~   51 (204)
T cd03282          30 RFHIITGPNMSGKSTYLKQIAL   51 (204)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999873

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

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=96.58  E-value=0.012  Score=59.79  Aligned_cols=28  Identities=32%  Similarity=0.380  Sum_probs=23.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      +..+-|+||=|+|||++++.+-.++...
T Consensus        20 ~~~IgL~G~WGsGKSs~l~~l~~~L~~~   47 (325)
T PF07693_consen   20 PFVIGLYGEWGSGKSSFLNMLKEELKED   47 (325)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            4567899999999999999998777443

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=96.58  E-value=0.0017  Score=63.88  Aligned_cols=31  Identities=45%  Similarity=0.559  Sum_probs=25.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      ++|+|+||+|||++|+++|.++   +.+++.++.
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~   35 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILGT   35 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEcc
Confidence            5789999999999999999987   456665543

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.

>PRK10646 ADP-binding protein; Provisional

Probab=96.57  E-value=0.0094  Score=54.03  Aligned_cols=60  Identities=28%  Similarity=0.409  Sum_probs=41.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC--------------------cEEEEeccccCChHHHHHH-HHh-ccCCeEEEEecc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY--------------------DVYDLELTTVQDNSELRSL-LID-TSSKSILVIEDI  286 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~--------------------~i~~l~~~~~~~~~~l~~l-~~~-~~~~~Il~iDei  286 (504)
                      ++|.|+=|+|||++++++|+.+|.                    ++|-+|+--+.+..++..+ |.+ .....|++||=.
T Consensus        31 i~L~GdLGaGKTtf~rgl~~~Lg~~~~V~SPTFtlv~~Y~~~~~~l~H~DlYRL~~~~el~~lG~~e~~~~~~i~~IEW~  110 (153)
T PRK10646         31 IYLYGDLGAGKTTFSRGFLQALGHQGNVKSPTYTLVEPYTLDNLMVYHFDLYRLADPEELEFMGIRDYFANDAICLVEWP  110 (153)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCCCCCCCCEeeEEEeeCCCCCEEEEeeccCCCHHHHHHcchHHhhcCCCEEEEECC
Confidence            789999999999999999998864                    3455565555555554433 222 234678888754


Q ss_pred             cc
Q 037859          287 DC  288 (504)
Q Consensus       287 D~  288 (504)
                      |.
T Consensus       111 e~  112 (153)
T PRK10646        111 QQ  112 (153)
T ss_pred             cc
Confidence            44

>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=96.56  E-value=0.0021  Score=59.84  Aligned_cols=31  Identities=32%  Similarity=0.303  Sum_probs=23.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      +|++||||||||+++..++.+.   |.++.++++
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~   35 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTL   35 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEEC
Confidence            6899999999999998876543   555555543

A related protein is found in archaea.

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=96.56  E-value=0.0031  Score=65.55  Aligned_cols=42  Identities=24%  Similarity=0.399  Sum_probs=34.3

Q ss_pred             cccccccChhHHHHHHHhhccc-ccccCCCCCcHHHHHHHHHHhc
Q 037859          207 TFDTLAMETKKKEEIKKDLKKG-YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l~rg-~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +++.+.+++...+.++.  ++| +|++||+|+||||++++++.++
T Consensus       131 ~l~~lgl~~~~~~~l~~--~~GlilI~G~TGSGKTT~l~al~~~i  173 (372)
T TIGR02525       131 DLKQMGIEPDLFNSLLP--AAGLGLICGETGSGKSTLAASIYQHC  173 (372)
T ss_pred             CHHHcCCCHHHHHHHHh--cCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            68888888877666553  455 6789999999999999999877

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).

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=96.55  E-value=0.0095  Score=69.09  Aligned_cols=79  Identities=22%  Similarity=0.343  Sum_probs=50.7

Q ss_pred             cccChhHHHHHHHhhc-c-cccccCCCCCcHHHHHHHHHHh---cCCcEEEEecccc---------C-ChHHHHHHHHh-
Q 037859          211 LAMETKKKEEIKKDLK-K-GYLLYGPPGTGKSTMIAAMANF---LNYDVYDLELTTV---------Q-DNSELRSLLID-  274 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l~-r-g~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~~---------~-~~~~l~~l~~~-  274 (504)
                      +.+.+++++.+...+. + -++|.|+||||||++.+++...   .|+.++.+-.+..         + ....+.+++.. 
T Consensus       345 ~~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L~e~tGi~a~TI~sll~~~  424 (988)
T PRK13889        345 LVLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLEGGSGIASRTIASLEHGW  424 (988)
T ss_pred             CCCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHHhhccCcchhhHHHHHhhh
Confidence            3478888888776662 3 3678999999999998877554   4777776644432         0 11223333321 


Q ss_pred             ------ccCCeEEEEeccccc
Q 037859          275 ------TSSKSILVIEDIDCS  289 (504)
Q Consensus       275 ------~~~~~Il~iDeiD~~  289 (504)
                            .....||||||+=.+
T Consensus       425 ~~~~~~l~~~~vlIVDEASMv  445 (988)
T PRK13889        425 GQGRDLLTSRDVLVIDEAGMV  445 (988)
T ss_pred             cccccccccCcEEEEECcccC
Confidence                  124579999998653

>PRK10436 hypothetical protein; Provisional

Probab=96.55  E-value=0.015  Score=62.20  Aligned_cols=82  Identities=21%  Similarity=0.456  Sum_probs=54.2

Q ss_pred             ccccccccChhHHHHHHHhh--ccc-ccccCCCCCcHHHHHHHHHHhcC---CcEEEEe------cccc-----C--ChH
Q 037859          206 ATFDTLAMETKKKEEIKKDL--KKG-YLLYGPPGTGKSTMIAAMANFLN---YDVYDLE------LTTV-----Q--DNS  266 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l--~rg-~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~------~~~~-----~--~~~  266 (504)
                      .+|+.+++.+...+.+...+  ++| +|+.||+|+||||+..++..+++   .+++.++      +..+     .  ...
T Consensus       195 ~~L~~LG~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDPvE~~l~gi~Q~~v~~~~g~  274 (462)
T PRK10436        195 LDLETLGMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEIPLAGINQTQIHPKAGL  274 (462)
T ss_pred             CCHHHcCcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCCccccCCCcceEeeCCccCc
Confidence            47899999998877777766  677 67889999999999988877764   3344432      1111     1  111


Q ss_pred             HHHHHHHhc--cCCeEEEEeccc
Q 037859          267 ELRSLLIDT--SSKSILVIEDID  287 (504)
Q Consensus       267 ~l~~l~~~~--~~~~Il~iDeiD  287 (504)
                      .+...+...  ..|-||+|.||-
T Consensus       275 ~f~~~lr~~LR~dPDvI~vGEIR  297 (462)
T PRK10436        275 TFQRVLRALLRQDPDVIMVGEIR  297 (462)
T ss_pred             CHHHHHHHHhcCCCCEEEECCCC
Confidence            233333322  478999999884

>KOG2383 consensus Predicted ATPase [General function prediction only]

Probab=96.53  E-value=0.0054  Score=63.02  Aligned_cols=22  Identities=36%  Similarity=0.700  Sum_probs=19.8

Q ss_pred             cccccccCCCCCcHHHHHHHHH
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMA  247 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA  247 (504)
                      |||++|||.-|||||+|---.-
T Consensus       114 PkGlYlYG~VGcGKTmLMDlFy  135 (467)
T KOG2383|consen  114 PKGLYLYGSVGCGKTMLMDLFY  135 (467)
T ss_pred             CceEEEecccCcchhHHHHHHh
Confidence            7999999999999999977654

>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]

Probab=96.53  E-value=0.0016  Score=69.89  Aligned_cols=61  Identities=23%  Similarity=0.347  Sum_probs=39.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEecc--ccC------ChHHHHHHHHh-----ccCCeEEEEeccccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELT--TVQ------DNSELRSLLID-----TSSKSILVIEDIDCS  289 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~--~~~------~~~~l~~l~~~-----~~~~~Il~iDeiD~~  289 (504)
                      +||+|.||||||-+.+.+++-...-++.--.+  +++      .+.--+..-.+     ...+.|-+|||+|.+
T Consensus       485 vLL~GDPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~KdPvtrEWTLEaGALVLADkGvClIDEFDKM  558 (854)
T KOG0477|consen  485 VLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVRKDPVTREWTLEAGALVLADKGVCLIDEFDKM  558 (854)
T ss_pred             EEEecCCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEeeCCccceeeeccCeEEEccCceEEeehhhhh
Confidence            89999999999999999998776666543111  110      00000111111     246889999999996

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=96.52  E-value=0.0083  Score=68.18  Aligned_cols=79  Identities=27%  Similarity=0.350  Sum_probs=50.4

Q ss_pred             cccChhHHHHHHHhhc--ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC----------ChHHHHHHHHh-
Q 037859          211 LAMETKKKEEIKKDLK--KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ----------DNSELRSLLID-  274 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l~--rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~----------~~~~l~~l~~~-  274 (504)
                      ..+.+++++.+...+.  +-++|.|+||||||++++++...+   |+.+..+-.+...          ....+.+++.. 
T Consensus       351 ~~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~~~~g~~a~Ti~~~~~~~  430 (744)
T TIGR02768       351 YRLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQAESGIESRTLASLEYAW  430 (744)
T ss_pred             CCCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHhccCCceeeHHHHHhhh
Confidence            4577888887766653  446889999999999999986544   6666665443320          00112222211 


Q ss_pred             ------ccCCeEEEEeccccc
Q 037859          275 ------TSSKSILVIEDIDCS  289 (504)
Q Consensus       275 ------~~~~~Il~iDeiD~~  289 (504)
                            .....+|+|||+-.+
T Consensus       431 ~~~~~~~~~~~llIvDEasMv  451 (744)
T TIGR02768       431 ANGRDLLSDKDVLVIDEAGMV  451 (744)
T ss_pred             ccCcccCCCCcEEEEECcccC
Confidence                  124689999998653

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.51  E-value=0.0032  Score=63.69  Aligned_cols=38  Identities=24%  Similarity=0.520  Sum_probs=28.6

Q ss_pred             cChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhc
Q 037859          213 METKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       213 ~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.++..+.+...+  ++++|+.||+|+|||++++++++++
T Consensus       117 ~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i  156 (299)
T TIGR02782       117 MTAAQRDVLREAVLARKNILVVGGTGSGKTTLANALLAEI  156 (299)
T ss_pred             CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            3444444444444  6779999999999999999999876

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.

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=96.50  E-value=0.0051  Score=61.17  Aligned_cols=62  Identities=23%  Similarity=0.460  Sum_probs=46.3

Q ss_pred             ccc-ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCCh----HHHHHHHHhc---cCCeEEEEeccc
Q 037859          226 KKG-YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDN----SELRSLLIDT---SSKSILVIEDID  287 (504)
Q Consensus       226 ~rg-~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~----~~l~~l~~~~---~~~~Il~iDeiD  287 (504)
                      ++| .||.|.+|+||+++++-.|.-.++.++.+..+.--+-    ++|+.++..+   ..+++++|+|-+
T Consensus        30 ~~Gh~LLvG~~GsGr~sl~rLaa~i~~~~~~~i~~~~~y~~~~f~~dLk~~~~~ag~~~~~~vfll~d~q   99 (268)
T PF12780_consen   30 PRGHALLVGVGGSGRQSLARLAAFICGYEVFQIEITKGYSIKDFKEDLKKALQKAGIKGKPTVFLLTDSQ   99 (268)
T ss_dssp             TTEEEEEECTTTSCHHHHHHHHHHHTTEEEE-TTTSTTTHHHHHHHHHHHHHHHHHCS-S-EEEEEECCC
T ss_pred             CCCCeEEecCCCccHHHHHHHHHHHhccceEEEEeeCCcCHHHHHHHHHHHHHHHhccCCCeEEEecCcc
Confidence            556 8899999999999999888888999999887653222    4566666655   368899998865

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=96.48  E-value=0.0084  Score=56.89  Aligned_cols=21  Identities=19%  Similarity=0.506  Sum_probs=19.5

Q ss_pred             ccccccCCCCCcHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMA  247 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA  247 (504)
                      +-++|.||.|+|||++.+.++
T Consensus        29 ~~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          29 RVLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            459999999999999999988

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

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=96.47  E-value=0.015  Score=64.09  Aligned_cols=46  Identities=30%  Similarity=0.536  Sum_probs=38.8

Q ss_pred             ccccccccChhHHHHHHHhh--ccc-ccccCCCCCcHHHHHHHHHHhcC
Q 037859          206 ATFDTLAMETKKKEEIKKDL--KKG-YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l--~rg-~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      .+++.+++.++..+.+...+  ++| +|++||+|+|||++..++.++++
T Consensus       293 ~~l~~lg~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~~  341 (564)
T TIGR02538       293 LDIDKLGFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNILN  341 (564)
T ss_pred             CCHHHcCCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhhC
Confidence            46899999998888887766  667 57899999999999998888775

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.

>TIGR00767 rho transcription termination factor Rho

Probab=96.47  E-value=0.0056  Score=63.80  Aligned_cols=26  Identities=31%  Similarity=0.622  Sum_probs=22.8

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhcC
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      ++|  +++.||||||||++++.+++.+.
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~  193 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAIT  193 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhc
Confidence            445  89999999999999999999764

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

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=96.45  E-value=0.04  Score=53.71  Aligned_cols=132  Identities=20%  Similarity=0.226  Sum_probs=71.3

Q ss_pred             ccc-ccccCCCCCcHHHHHHHHHHhcCCc-E--EEEeccccCCh--------------------------HHHHHHHHhc
Q 037859          226 KKG-YLLYGPPGTGKSTMIAAMANFLNYD-V--YDLELTTVQDN--------------------------SELRSLLIDT  275 (504)
Q Consensus       226 ~rg-~LL~GPpGtGKTsla~aiA~~l~~~-i--~~l~~~~~~~~--------------------------~~l~~l~~~~  275 (504)
                      .+| +.++|+-|+|||.+++|+...++-+ +  +.++-..+...                          ..|..++.+-
T Consensus        50 ~qg~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~~~g  129 (269)
T COG3267          50 GQGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVKKG  129 (269)
T ss_pred             CCceEEEEecCCCchhHHHHHHHHhcCCCceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHHHHhC
Confidence            455 4589999999999999888777543 2  22222222111                          1122333333


Q ss_pred             cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCC
Q 037859          276 SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNY  355 (504)
Q Consensus       276 ~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~  355 (504)
                      ..|.++++||++.+-.                                ..-..+--|.|.-++..  ....+++|+=..-
T Consensus       130 ~r~v~l~vdEah~L~~--------------------------------~~le~Lrll~nl~~~~~--~~l~ivL~Gqp~L  175 (269)
T COG3267         130 KRPVVLMVDEAHDLND--------------------------------SALEALRLLTNLEEDSS--KLLSIVLIGQPKL  175 (269)
T ss_pred             CCCeEEeehhHhhhCh--------------------------------hHHHHHHHHHhhccccc--CceeeeecCCccc
Confidence            5678999999987521                                01112222333222221  1122344442211


Q ss_pred             CC--CCC--hhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          356 VD--KLD--PALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       356 ~e--~Ld--~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      -.  +++  ..+.+  |++..|++++.+.++-...++..|+.
T Consensus       176 ~~~lr~~~l~e~~~--R~~ir~~l~P~~~~~t~~yl~~~Le~  215 (269)
T COG3267         176 RPRLRLPVLRELEQ--RIDIRIELPPLTEAETGLYLRHRLEG  215 (269)
T ss_pred             chhhchHHHHhhhh--eEEEEEecCCcChHHHHHHHHHHHhc
Confidence            00  111  23445  89888999999998777777777653

>PHA00350 putative assembly protein

Probab=96.45  E-value=0.01  Score=62.06  Aligned_cols=62  Identities=16%  Similarity=0.164  Sum_probs=38.2

Q ss_pred             ccccCCCCCcHHHHHHH--H--HHhcCCcEEEEeccccCChHHHHH---------------------------HHHhccC
Q 037859          229 YLLYGPPGTGKSTMIAA--M--ANFLNYDVYDLELTTVQDNSELRS---------------------------LLIDTSS  277 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~a--i--A~~l~~~i~~l~~~~~~~~~~l~~---------------------------l~~~~~~  277 (504)
                      +|++|+||+|||+-+-.  |  |-.-|+.++. ++..+.- +.+..                           .+.-.+.
T Consensus         4 ~l~tG~pGSGKT~~aV~~~i~palk~GR~V~T-NI~Gl~l-e~i~~~~~~~p~~~~li~i~~~~~~~~~~~~~~~~w~p~   81 (399)
T PHA00350          4 YAIVGRPGSYKSYEAVVYHIIPALKDGRKVIT-NIPGLNL-DVFEKVFGEFPSTARLIRIVDRNLEGFESMNRPFSWRPR   81 (399)
T ss_pred             EEEecCCCCchhHHHHHHHHHHHHHCCCEEEE-CCCCCCH-HHHHhhcccCcccceeEEeccccccchhhhccccccCCC
Confidence            67899999999997765  3  3334666553 4443221 11111                           1111346


Q ss_pred             CeEEEEecccccccc
Q 037859          278 KSILVIEDIDCSLDL  292 (504)
Q Consensus       278 ~~Il~iDeiD~~~~~  292 (504)
                      .++|||||+..+++.
T Consensus        82 gaLIViDEaq~~~p~   96 (399)
T PHA00350         82 GALYVIDEAQMIFPK   96 (399)
T ss_pred             CCEEEEECchhhcCC
Confidence            789999999998753

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.45  E-value=0.0023  Score=60.75  Aligned_cols=28  Identities=25%  Similarity=0.405  Sum_probs=24.6

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDV  254 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i  254 (504)
                      +-+++.|+||+|||++++.+|..++...
T Consensus         4 ~~i~i~G~~G~GKst~a~~l~~~~~~~~   31 (197)
T PRK12339          4 TIHFIGGIPGVGKTSISGYIARHRAIDI   31 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCeE
Confidence            4478899999999999999999988654

>TIGR00376 DNA helicase, putative

Probab=96.45  E-value=0.0066  Score=67.72  Aligned_cols=50  Identities=26%  Similarity=0.437  Sum_probs=37.9

Q ss_pred             cccChhHHHHHHHhhc--ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          211 LAMETKKKEEIKKDLK--KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l~--rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      -.+++.+++.+...+.  ..+|++||||||||+++.++...+   |..+..+..+
T Consensus       156 ~~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a~s  210 (637)
T TIGR00376       156 PNLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTAPS  210 (637)
T ss_pred             CCCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCc
Confidence            3578888888887773  457899999999999988887664   6666665433

The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.

>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=96.43  E-value=0.0098  Score=56.49  Aligned_cols=21  Identities=33%  Similarity=0.517  Sum_probs=19.4

Q ss_pred             ccccccCCCCCcHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMA  247 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA  247 (504)
                      +-++|.||.|+|||++.+.|+
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~   50 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIG   50 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHH
Confidence            358999999999999999998

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

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.38  E-value=0.0026  Score=58.94  Aligned_cols=25  Identities=28%  Similarity=0.367  Sum_probs=22.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      .-++|.|+||+|||++++++++.+.
T Consensus         8 ~~I~i~G~~GsGKst~a~~l~~~l~   32 (176)
T PRK05541          8 YVIWITGLAGSGKTTIAKALYERLK   32 (176)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            3477899999999999999999885

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=96.37  E-value=0.019  Score=67.91  Aligned_cols=149  Identities=14%  Similarity=0.158  Sum_probs=91.8

Q ss_pred             cccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHH-------------
Q 037859          209 DTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELR-------------  269 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~-------------  269 (504)
                      +.+++.|-+.+.++.-+      .-.+|+-||..+|||+++..+|...|..++.++-..-.+-.+..             
T Consensus       865 ~hyIiTPfVqkn~ln~~Ra~s~~~fP~LiQGpTSSGKTSMI~yla~~tghkfVRINNHEHTdlqeYiGTyvTdd~G~lsF  944 (4600)
T COG5271         865 EHYIITPFVQKNYLNTMRAASLSNFPLLIQGPTSSGKTSMILYLARETGHKFVRINNHEHTDLQEYIGTYVTDDDGSLSF  944 (4600)
T ss_pred             ceeEecHHHHHHHHHHHHHHhhcCCcEEEecCCCCCcchHHHHHHHHhCccEEEecCcccchHHHHhhceeecCCCceee
Confidence            45677776666555555      34489999999999999999999999999999765432222111             


Q ss_pred             --HHHH-hccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc-----
Q 037859          270 --SLLI-DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS-----  341 (504)
Q Consensus       270 --~l~~-~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~-----  341 (504)
                        ..+. ...+.--|++||+.-..                                ..--..++.||.-=..+.-     
T Consensus       945 kEGvLVeAlR~GyWIVLDELNLAp--------------------------------TDVLEaLNRLLDDNRelfIPETqe  992 (4600)
T COG5271         945 KEGVLVEALRRGYWIVLDELNLAP--------------------------------TDVLEALNRLLDDNRELFIPETQE  992 (4600)
T ss_pred             ehhHHHHHHhcCcEEEeeccccCc--------------------------------HHHHHHHHHhhccccceecCCcce
Confidence              1222 22455678999997631                                1112233444321001100     


Q ss_pred             --cCCCceEEEEecCCCC------CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          342 --ASGEERIIVFTTNYVD------KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       342 --~~~~~~ivI~tTN~~e------~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                        ...++..+++|-|+|.      .|..|++.  || ..++|+.-..++...|+..-..
T Consensus       993 vV~PHp~F~lFATQNppg~YgGRK~LSrAFRN--RF-lE~hFddipedEle~ILh~rc~ 1048 (4600)
T COG5271         993 VVVPHPNFRLFATQNPPGGYGGRKGLSRAFRN--RF-LEMHFDDIPEDELEEILHGRCE 1048 (4600)
T ss_pred             eeccCCCeeEEeecCCCccccchHHHHHHHHh--hh-HhhhcccCcHHHHHHHHhccCc
Confidence              1123345566667664      47789988  99 6788877777777777765543

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

Probab=96.34  E-value=0.047  Score=56.00  Aligned_cols=35  Identities=26%  Similarity=0.345  Sum_probs=30.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELT  260 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  260 (504)
                      |..+.|||-.|||||.+++.+-+.++.+-..+++-
T Consensus        30 PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~   64 (438)
T KOG2543|consen   30 PSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCV   64 (438)
T ss_pred             ceeEEEeccCCCchhHHHHHHHhhcCCcceeeehH
Confidence            66679999999999999999999998887766553

>PF00488 MutS_V: MutS domain V C-terminus

Probab=96.33  E-value=0.015  Score=56.82  Aligned_cols=62  Identities=19%  Similarity=0.424  Sum_probs=39.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh-----cCCc---------EE---EEecc---ccC--------ChHHHHHHHHhccCC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF-----LNYD---------VY---DLELT---TVQ--------DNSELRSLLIDTSSK  278 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~-----l~~~---------i~---~l~~~---~~~--------~~~~l~~l~~~~~~~  278 (504)
                      +.+++.||...|||++.+.+|-.     +|..         ++   .....   ++.        .-.++..++..+.++
T Consensus        44 ~~~iiTGpN~sGKSt~lk~i~~~~ilaq~G~~VPA~~~~i~~~d~I~t~~~~~d~~~~~~S~F~~E~~~~~~il~~~~~~  123 (235)
T PF00488_consen   44 RIIIITGPNMSGKSTFLKQIGLIVILAQIGCFVPAESAEIPIFDRIFTRIGDDDSIESGLSTFMAEMKRLSSILRNATEK  123 (235)
T ss_dssp             SEEEEESSTTSSHHHHHHHHHHHHHHHTTT--BSSSEEEEE--SEEEEEES---SSTTSSSHHHHHHHHHHHHHHH--TT
T ss_pred             eEEEEeCCCccchhhHHHHHHHHhhhhhcCceeeecccccccccEEEeecccccccccccccHHHhHHHHHhhhhhcccc
Confidence            57899999999999999998743     2321         11   11111   111        113567777778899


Q ss_pred             eEEEEecccc
Q 037859          279 SILVIEDIDC  288 (504)
Q Consensus       279 ~Il~iDeiD~  288 (504)
                      ++|+|||+=.
T Consensus       124 sLvliDE~g~  133 (235)
T PF00488_consen  124 SLVLIDELGR  133 (235)
T ss_dssp             EEEEEESTTT
T ss_pred             eeeecccccC
Confidence            9999999854

; InterPro: IPR000432 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the C-terminal domain found in proteins in the MutS family of DNA mismatch repair proteins. The C-terminal region of MutS is comprised of the ATPase domain and the HTH (helix-turn-helix) domain, the latter being involved in dimer contacts. Yeast MSH3 [], bacterial proteins involved in DNA mismatch repair, and the predicted protein product of the Rep-3 gene of mouse share extensive sequence similarity. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. ; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1FW6_A 1EWQ_A 1EWR_B 1NNE_B 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B ....

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=96.32  E-value=0.0083  Score=57.50  Aligned_cols=25  Identities=36%  Similarity=0.719  Sum_probs=21.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -..|+.||||||||++.+-+|+.+.
T Consensus       138 lntLiigpP~~GKTTlLRdiaR~~s  162 (308)
T COG3854         138 LNTLIIGPPQVGKTTLLRDIARLLS  162 (308)
T ss_pred             eeeEEecCCCCChHHHHHHHHHHhh
Confidence            3467999999999999999998763

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=96.32  E-value=0.003  Score=58.86  Aligned_cols=29  Identities=34%  Similarity=0.419  Sum_probs=25.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +.|+|+||+|||++++.++. +|+++++.|
T Consensus         2 i~itG~~gsGKst~~~~l~~-~g~~~i~~D   30 (179)
T cd02022           2 IGLTGGIGSGKSTVAKLLKE-LGIPVIDAD   30 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCCEEecC
Confidence            57899999999999999999 888877664

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

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

Probab=96.30  E-value=0.0024  Score=59.23  Aligned_cols=25  Identities=28%  Similarity=0.377  Sum_probs=22.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -+++.||||+|||+++++|+..++.
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~~~~   27 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARARLAG   27 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCc
Confidence            3678999999999999999998754

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.28  E-value=0.0099  Score=54.49  Aligned_cols=24  Identities=29%  Similarity=0.498  Sum_probs=21.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .-+.|.||.|+|||+|.+.|++..
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            347899999999999999999876

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.

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=96.28  E-value=0.015  Score=53.15  Aligned_cols=63  Identities=27%  Similarity=0.434  Sum_probs=38.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---------------CCcEEEEe----cc--ccC-Ch---HHHHHHHHhcc--CCe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---------------NYDVYDLE----LT--TVQ-DN---SELRSLLIDTS--SKS  279 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---------------~~~i~~l~----~~--~~~-~~---~~l~~l~~~~~--~~~  279 (504)
                      +-.++.||.|+|||++.++++-.+               +..+...+    ..  .+. ..   -.+.+.+...+  .|.
T Consensus        22 ~~~~i~G~NgsGKS~~l~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~i~~~~~lS~G~~~~~~la~~L~~~~~~~~~  101 (162)
T cd03227          22 SLTIITGPNGSGKSTILDAIGLALGGAQSATRRRSGVKAGCIVAAVSAELIFTRLQLSGGEKELSALALILALASLKPRP  101 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhcchhhhccCcccCCCcceeeEEEEehheeeccccHHHHHHHHHHHHhcCCCCCC
Confidence            467899999999999999985332               33222222    11  111 11   22444454443  789


Q ss_pred             EEEEeccccc
Q 037859          280 ILVIEDIDCS  289 (504)
Q Consensus       280 Il~iDeiD~~  289 (504)
                      +++|||+..-
T Consensus       102 llllDEp~~g  111 (162)
T cd03227         102 LYILDEIDRG  111 (162)
T ss_pred             EEEEeCCCCC
Confidence            9999999873

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=96.28  E-value=0.0038  Score=56.81  Aligned_cols=34  Identities=32%  Similarity=0.462  Sum_probs=27.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTV  262 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  262 (504)
                      +.|.|.||+|||++|+++...|   +.+++.++...+
T Consensus         5 IwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~l   41 (156)
T PF01583_consen    5 IWLTGLSGSGKTTLARALERRLFARGIKVYLLDGDNL   41 (156)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCcEEEecCcch
Confidence            6789999999999999999877   777888865443

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>cd04159 Arl10_like Arl10-like subfamily

Probab=96.27  E-value=0.0069  Score=53.71  Aligned_cols=21  Identities=29%  Similarity=0.422  Sum_probs=19.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +.|.||+|+|||+|++++.+.
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            578999999999999999875

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>PRK12338 hypothetical protein; Provisional

Probab=96.26  E-value=0.003  Score=64.09  Aligned_cols=29  Identities=31%  Similarity=0.339  Sum_probs=25.4

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDV  254 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i  254 (504)
                      |.-+++.|+||||||++|+++|..++...
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l~~~~   32 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTLNIKH   32 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHCCCeE
Confidence            34578899999999999999999998754

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.25  E-value=0.0035  Score=57.97  Aligned_cols=31  Identities=35%  Similarity=0.487  Sum_probs=24.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      -+.|.|+||+|||++++++|..+   +.++..++
T Consensus         6 ~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id   39 (175)
T PRK00889          6 TVWFTGLSGAGKTTIARALAEKLREAGYPVEVLD   39 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEc
Confidence            37789999999999999999987   33455454

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=96.24  E-value=0.013  Score=53.45  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=19.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|+||+|||+|+.++.+.
T Consensus         5 ki~vvG~~~~GKSsl~~~~~~~   26 (167)
T cd01867           5 KLLLIGDSGVGKSCLLLRFSED   26 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3789999999999999999864

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi

>KOG0481 consensus DNA replication licensing factor, MCM5 component [Replication, recombination and repair]

Probab=96.24  E-value=0.019  Score=60.68  Aligned_cols=77  Identities=22%  Similarity=0.336  Sum_probs=46.0

Q ss_pred             cChhHHHHHHHhh-------------ccc---ccccCCCCCcHHHHHHHHHHhcCCcEEEEecc----cc----CChHHH
Q 037859          213 METKKKEEIKKDL-------------KKG---YLLYGPPGTGKSTMIAAMANFLNYDVYDLELT----TV----QDNSEL  268 (504)
Q Consensus       213 ~~~~~k~~i~~~l-------------~rg---~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~----~~----~~~~~l  268 (504)
                      +..+.|+.|...|             .||   +||-|.|||.||-|.+-+-.-.-.-+|.---.    .+    .-++.-
T Consensus       335 G~~DiKkAiaClLFgGsrK~LpDg~~lRGDINVLLLGDPgtAKSQlLKFvEkvsPIaVYTSGKGSSAAGLTASV~RD~~t  414 (729)
T KOG0481|consen  335 GHEDIKKAIACLLFGGSRKRLPDGVTLRGDINVLLLGDPGTAKSQLLKFVEKVSPIAVYTSGKGSSAAGLTASVIRDPST  414 (729)
T ss_pred             CchhHHHHHHHHhhcCccccCCCcceeccceeEEEecCCchhHHHHHHHHHhcCceEEEecCCCcccccceeeEEecCCc
Confidence            5556666666555             455   89999999999999998866554444432100    00    000111


Q ss_pred             HHHHHh-----ccCCeEEEEeccccc
Q 037859          269 RSLLID-----TSSKSILVIEDIDCS  289 (504)
Q Consensus       269 ~~l~~~-----~~~~~Il~iDeiD~~  289 (504)
                      |..+.+     .....|+.|||+|.+
T Consensus       415 ReFylEGGAMVLADgGVvCIDEFDKM  440 (729)
T KOG0481|consen  415 REFYLEGGAMVLADGGVVCIDEFDKM  440 (729)
T ss_pred             ceEEEecceEEEecCCEEEeehhhcc
Confidence            111111     146789999999985

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=96.22  E-value=0.016  Score=52.04  Aligned_cols=56  Identities=30%  Similarity=0.453  Sum_probs=38.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC--------------------CcEEEEeccccCChHHH-----HHHHHhccCCeEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN--------------------YDVYDLELTTVQDNSEL-----RSLLIDTSSKSILVI  283 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~--------------------~~i~~l~~~~~~~~~~l-----~~l~~~~~~~~Il~i  283 (504)
                      ++|.|+=|.|||++++++|..++                    .++|-+|+--+.+.+++     ...|.   ..+|.+|
T Consensus        28 v~L~GdLGAGKTtf~rgi~~~Lg~~~~V~SPTFtlv~~Y~~~~~~lyH~DlYRl~d~ee~~~lg~~e~~~---~~gv~lI  104 (149)
T COG0802          28 VLLSGDLGAGKTTLVRGIAKGLGVDGNVKSPTFTLVEEYEEGRLPLYHFDLYRLSDPEELDELGLDEYFD---GDGICLI  104 (149)
T ss_pred             EEEEcCCcCChHHHHHHHHHHcCCCCcccCCCeeeehhhcCCCCcEEEEeeeccCChHHhHhcCHHHHhC---CCcEEEE
Confidence            78999999999999999999885                    34666666666544432     23332   3677777


Q ss_pred             eccc
Q 037859          284 EDID  287 (504)
Q Consensus       284 DeiD  287 (504)
                      |=-+
T Consensus       105 EW~e  108 (149)
T COG0802         105 EWPE  108 (149)
T ss_pred             ECcc
Confidence            6333

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

Probab=96.22  E-value=0.0028  Score=60.07  Aligned_cols=35  Identities=37%  Similarity=0.419  Sum_probs=25.6

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      |+-++|.||+|+||||.+.-+|.++   +..+..+.+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D   38 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISAD   38 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEES
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceeecCC
Confidence            4568899999999999999998776   4444444443

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 ....

>PRK11545 gntK gluconate kinase 1; Provisional

Probab=96.21  E-value=0.0035  Score=57.59  Aligned_cols=26  Identities=31%  Similarity=0.428  Sum_probs=22.2

Q ss_pred             cCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          232 YGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       232 ~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .||||||||++++++|..++..+++-
T Consensus         1 ~G~sGsGKSTla~~la~~l~~~~~~~   26 (163)
T PRK11545          1 MGVSGSGKSAVASEVAHQLHAAFLDG   26 (163)
T ss_pred             CCCCCCcHHHHHHHHHHHhCCeEEeC
Confidence            49999999999999999998655543

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.21  E-value=0.0039  Score=68.18  Aligned_cols=31  Identities=29%  Similarity=0.669  Sum_probs=25.4

Q ss_pred             HHHhh----ccc--ccccCCCCCcHHHHHHHHHHhcC
Q 037859          221 IKKDL----KKG--YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       221 i~~~l----~rg--~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +++++    ++|  +.+.||+|+|||||++.+++...
T Consensus       350 vL~~isl~i~~G~~vaIvG~SGsGKSTLl~lL~g~~~  386 (529)
T TIGR02868       350 VLDGVSLDLPPGERVAILGPSGSGKSTLLMLLTGLLD  386 (529)
T ss_pred             eeecceEEEcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            45555    455  89999999999999999998763

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.21  E-value=0.032  Score=50.97  Aligned_cols=31  Identities=32%  Similarity=0.386  Sum_probs=23.1

Q ss_pred             cc-ccccCCCCCcHHHHHHHHHHhc---CCcEEEE
Q 037859          227 KG-YLLYGPPGTGKSTMIAAMANFL---NYDVYDL  257 (504)
Q Consensus       227 rg-~LL~GPpGtGKTsla~aiA~~l---~~~i~~l  257 (504)
                      +| +.+|+++|+|||++|-++|-..   |..+..+
T Consensus         2 ~G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~v   36 (159)
T cd00561           2 KGLIQVYTGNGKGKTTAALGLALRALGHGYRVGVV   36 (159)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            35 4578999999999999987543   6665553

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>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=96.20  E-value=0.0031  Score=58.29  Aligned_cols=22  Identities=36%  Similarity=0.773  Sum_probs=19.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++|.|+||+||||+++.++.++
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            6899999999999999999887

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.

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.20  E-value=0.0055  Score=63.52  Aligned_cols=44  Identities=30%  Similarity=0.542  Sum_probs=33.4

Q ss_pred             CccccccccChhHHHHHHHhhccc-ccccCCCCCcHHHHHHHHHHhc
Q 037859          205 PATFDTLAMETKKKEEIKKDLKKG-YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l~rg-~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.+|+.+.+++...+.+..  ++| ++++||+|+||||+++++++++
T Consensus       114 ~~~l~~l~~~~~~~~~~~~--~~glilI~GpTGSGKTTtL~aLl~~i  158 (358)
T TIGR02524       114 PPKLSKLDLPAAIIDAIAP--QEGIVFITGATGSGKSTLLAAIIREL  158 (358)
T ss_pred             CCCHHHcCCCHHHHHHHhc--cCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4568888887654443321  455 7889999999999999999886

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.20  E-value=0.0063  Score=56.65  Aligned_cols=26  Identities=31%  Similarity=0.581  Sum_probs=23.4

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      -+.+.||+|+|||++++++++.++..
T Consensus         5 ~i~l~G~sGsGKSTl~~~la~~l~~~   30 (176)
T PRK09825          5 SYILMGVSGSGKSLIGSKIAALFSAK   30 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCE
Confidence            37889999999999999999998864

>KOG0482 consensus DNA replication licensing factor, MCM7 component [Replication, recombination and repair]

Probab=96.19  E-value=0.0052  Score=64.70  Aligned_cols=149  Identities=18%  Similarity=0.191  Sum_probs=85.1

Q ss_pred             cccChhHHHHHHHhh-------------ccc---ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccc--cC-ChHHHHHH
Q 037859          211 LAMETKKKEEIKKDL-------------KKG---YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT--VQ-DNSELRSL  271 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l-------------~rg---~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~--~~-~~~~l~~l  271 (504)
                      +-+.+++|+.++-.+             -||   ++|.|.||+.||-|.+.+.+-.-...|.---.+  ++ +..-++.-
T Consensus       344 IyGheDVKKaLLLlLVGgvd~~~~dGMKIRGdINicLmGDPGVAKSQLLkyi~rlapRgvYTTGrGSSGVGLTAAVmkDp  423 (721)
T KOG0482|consen  344 IYGHEDVKKALLLLLVGGVDKSPGDGMKIRGDINICLMGDPGVAKSQLLKYISRLAPRGVYTTGRGSSGVGLTAAVMKDP  423 (721)
T ss_pred             hccchHHHHHHHHHhhCCCCCCCCCCceeecceeEEecCCCchhHHHHHHHHHhcCcccceecCCCCCccccchhhhcCC
Confidence            346677888887766             233   899999999999999999987766666432111  11 11111110


Q ss_pred             HHh----------ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHH----HHHhhhhc
Q 037859          272 LID----------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTL----SGLLNFID  337 (504)
Q Consensus       272 ~~~----------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l----s~lL~~lD  337 (504)
                      ...          .....|-.|||+|.+.+.  .|. .                    -.....+.++    .+++..+.
T Consensus       424 vTgEM~LEGGALVLAD~GICCIDEfDKM~e~--DRt-A--------------------IHEVMEQQTISIaKAGI~TtLN  480 (721)
T KOG0482|consen  424 VTGEMVLEGGALVLADGGICCIDEFDKMDES--DRT-A--------------------IHEVMEQQTISIAKAGINTTLN  480 (721)
T ss_pred             CCCeeEeccceEEEccCceEeehhhhhhhhh--hhH-H--------------------HHHHHHhhhhhhhhhccccchh
Confidence            000          135778899999996320  000 0                    0000001111    12222211


Q ss_pred             CccccCCCceEEEEecCCCC-------------CCChhhhcCCCceeEEEe-cCCCHHHHHHHHHHhc
Q 037859          338 GLWSASGEERIIVFTTNYVD-------------KLDPALIRRGRMDKHIEM-SYCCFEAFKVLAKNYL  391 (504)
Q Consensus       338 g~~~~~~~~~ivI~tTN~~e-------------~Ld~ALlRpGR~d~~I~~-~~p~~e~~~~i~~~~l  391 (504)
                             ...-|+++.|...             .||+||+.  |||...-+ +.|+.+.=..|+++..
T Consensus       481 -------AR~sILaAANPayGRYnprrs~e~NI~LPaALLS--RFDll~Li~D~pdrd~D~~LA~HiT  539 (721)
T KOG0482|consen  481 -------ARTSILAAANPAYGRYNPRRSPEQNINLPAALLS--RFDLLWLIQDRPDRDNDLRLAQHIT  539 (721)
T ss_pred             -------hhHHhhhhcCccccccCcccChhHhcCCcHHHHH--hhhhhhhhccCCcccchHHHHHHhH
Confidence                   1123566666431             48999999  99976544 6798888788887754

>PLN02674 adenylate kinase

Probab=96.19  E-value=0.0035  Score=61.40  Aligned_cols=29  Identities=31%  Similarity=0.472  Sum_probs=25.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      ..++|.||||+|||++++.||..+++..+
T Consensus        32 ~~i~l~G~PGsGKgT~a~~La~~~~~~hi   60 (244)
T PLN02674         32 KRLILIGPPGSGKGTQSPIIKDEYCLCHL   60 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHcCCcEE
Confidence            35889999999999999999999986544

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=96.19  E-value=0.01  Score=65.58  Aligned_cols=23  Identities=35%  Similarity=0.615  Sum_probs=21.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.+.||.|+|||||++.|++.+.
T Consensus       372 ~aIvG~sGsGKSTLl~ll~gl~~  394 (582)
T PRK11176        372 VALVGRSGSGKSTIANLLTRFYD  394 (582)
T ss_pred             EEEECCCCCCHHHHHHHHHhccC
Confidence            99999999999999999999763

>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=96.16  E-value=0.0048  Score=56.92  Aligned_cols=35  Identities=34%  Similarity=0.423  Sum_probs=28.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ  263 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  263 (504)
                      +++.||||+|||+++..+|..+   +..+..+++....
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~~   40 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYR   40 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Confidence            5789999999999999998875   6677777766543

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.

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=96.16  E-value=0.0049  Score=66.56  Aligned_cols=47  Identities=30%  Similarity=0.480  Sum_probs=39.3

Q ss_pred             CccccccccChhHHHHHHHhh--ccc-ccccCCCCCcHHHHHHHHHHhcC
Q 037859          205 PATFDTLAMETKKKEEIKKDL--KKG-YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l--~rg-~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.+++.+++.++..+.+...+  ++| +|++||+|+|||++..++.++++
T Consensus       218 ~~~l~~Lg~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~  267 (486)
T TIGR02533       218 RLDLETLGMSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLN  267 (486)
T ss_pred             CCCHHHcCCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccC
Confidence            457899999998888877766  677 57899999999999999888774

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.

>cd04177 RSR1 RSR1 subgroup

Probab=96.16  E-value=0.021  Score=52.09  Aligned_cols=21  Identities=24%  Similarity=0.458  Sum_probs=18.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|+||+|||+++.++++.
T Consensus         4 i~liG~~~~GKTsli~~~~~~   24 (168)
T cd04177           4 IVVLGAGGVGKSALTVQFVQN   24 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998754

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=96.15  E-value=0.0037  Score=61.17  Aligned_cols=31  Identities=35%  Similarity=0.731  Sum_probs=22.7

Q ss_pred             ccCCCCCcHHHHHHHHHHhc---CCcEEEEeccc
Q 037859          231 LYGPPGTGKSTMIAAMANFL---NYDVYDLELTT  261 (504)
Q Consensus       231 L~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  261 (504)
                      +.||||+||||+++++...+   +++++.+|+.-
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vNLDP   34 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVNLDP   34 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE--T
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCceEEEcch
Confidence            36999999999999999877   56777777653

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.15  E-value=0.011  Score=65.66  Aligned_cols=25  Identities=40%  Similarity=0.825  Sum_probs=22.4

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++|  +.+.||+|+|||||++.+++.+
T Consensus       374 ~~G~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        374 PAGQRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            455  8999999999999999999876

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.15  E-value=0.0052  Score=57.62  Aligned_cols=38  Identities=24%  Similarity=0.446  Sum_probs=28.0

Q ss_pred             ChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcC
Q 037859          214 ETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       214 ~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +++..+.+...+  +..+++.||+|+|||++++++++.+.
T Consensus        11 ~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~i~   50 (186)
T cd01130          11 SPLQAAYLWLAVEARKNILISGGTGSGKTTLLNALLAFIP   50 (186)
T ss_pred             CHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            344444444444  44589999999999999999998764

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.

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=96.15  E-value=0.0048  Score=64.90  Aligned_cols=29  Identities=28%  Similarity=0.454  Sum_probs=26.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDV  254 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i  254 (504)
                      .+-+.+.|++|||||||+++||..+|...
T Consensus       219 ~~~IvI~G~~gsGKTTL~~~La~~~g~~~  247 (399)
T PRK08099        219 VRTVAILGGESSGKSTLVNKLANIFNTTS  247 (399)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHhCCCe
Confidence            56689999999999999999999988764

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=96.15  E-value=0.021  Score=58.31  Aligned_cols=25  Identities=32%  Similarity=0.634  Sum_probs=22.6

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++.+++.||+|+|||+++++++.++
T Consensus       148 ~~~ilI~G~tGSGKTTll~aL~~~~  172 (319)
T PRK13894        148 HRNILVIGGTGSGKTTLVNAIINEM  172 (319)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhh
Confidence            6679999999999999999999863

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.14  E-value=0.0032  Score=59.76  Aligned_cols=23  Identities=52%  Similarity=0.928  Sum_probs=20.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +++.||+|+|||++++++++++.
T Consensus         4 ilI~GptGSGKTTll~~ll~~~~   26 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYIN   26 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            67899999999999999998874

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.

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

Probab=96.14  E-value=0.017  Score=57.23  Aligned_cols=43  Identities=19%  Similarity=0.293  Sum_probs=28.7

Q ss_pred             ccccc--ccCCCCCcHHHHHHHHHHhc---------CCcEEEEeccccCChHHH
Q 037859          226 KKGYL--LYGPPGTGKSTMIAAMANFL---------NYDVYDLELTTVQDNSEL  268 (504)
Q Consensus       226 ~rg~L--L~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~~~~~~~l  268 (504)
                      +.|.+  ++||||||||.|+-.+|-..         +..++++|...--...++
T Consensus        36 ~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl   89 (256)
T PF08423_consen   36 PTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERL   89 (256)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHH
T ss_pred             CCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHH
Confidence            34433  89999999999998887433         345788877653333333

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>PLN02165 adenylate isopentenyltransferase

Probab=96.14  E-value=0.0035  Score=63.83  Aligned_cols=33  Identities=18%  Similarity=0.351  Sum_probs=28.2

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEecc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLELT  260 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  260 (504)
                      -++|.||+|+|||+|+..||..++..++..|.-
T Consensus        45 iivIiGPTGSGKStLA~~LA~~l~~eIIsaDs~   77 (334)
T PLN02165         45 VVVIMGATGSGKSRLSVDLATRFPSEIINSDKM   77 (334)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHcCCceecCChh
Confidence            478899999999999999999999877765433

>cd03286 ABC_MSH6_euk MutS6 homolog in eukaryotes

Probab=96.14  E-value=0.017  Score=55.76  Aligned_cols=62  Identities=19%  Similarity=0.381  Sum_probs=40.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh-----cCC---------cEEE---Eecc---ccC--------ChHHHHHHHHhccCC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF-----LNY---------DVYD---LELT---TVQ--------DNSELRSLLIDTSSK  278 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~-----l~~---------~i~~---l~~~---~~~--------~~~~l~~l~~~~~~~  278 (504)
                      +-++|+||.|.|||++.+.++..     .|.         ++++   ....   ++.        .-.++..++..+..+
T Consensus        31 ~~~~itG~n~~gKs~~l~~i~~~~~la~~G~~vpa~~~~i~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il~~~~~~  110 (218)
T cd03286          31 RILVLTGPNMGGKSTLLRTVCLAVIMAQMGMDVPAKSMRLSLVDRIFTRIGARDDIMKGESTFMVELSETANILRHATPD  110 (218)
T ss_pred             cEEEEECCCCCchHHHHHHHHHHHHHHHcCCccCccccEeccccEEEEecCcccccccCcchHHHHHHHHHHHHHhCCCC
Confidence            45889999999999999988653     232         1111   1111   011        113456777778899


Q ss_pred             eEEEEecccc
Q 037859          279 SILVIEDIDC  288 (504)
Q Consensus       279 ~Il~iDeiD~  288 (504)
                      ++++|||+-.
T Consensus       111 sLvLlDE~~~  120 (218)
T cd03286         111 SLVILDELGR  120 (218)
T ss_pred             eEEEEecccC
Confidence            9999999854

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

>PRK13826 Dtr system oriT relaxase; Provisional

Probab=96.12  E-value=0.018  Score=67.28  Aligned_cols=79  Identities=20%  Similarity=0.291  Sum_probs=51.0

Q ss_pred             cccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHh---cCCcEEEEeccccC----------ChHHHHHHHHh-
Q 037859          211 LAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANF---LNYDVYDLELTTVQ----------DNSELRSLLID-  274 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~~~----------~~~~l~~l~~~-  274 (504)
                      ..+.+++++.+....  .+-.++.|++|||||++.+++...   .|+.++-+-.+..-          ....+..++.. 
T Consensus       380 ~~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTgkAA~~L~e~~Gi~a~TIas~ll~~  459 (1102)
T PRK13826        380 ARLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGLEKEAGIQSRTLSSWELRW  459 (1102)
T ss_pred             CCCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcHHHHHHHHHhhCCCeeeHHHHHhhh
Confidence            457888888776543  344788999999999999998764   47777766443320          11123332211 


Q ss_pred             ------ccCCeEEEEeccccc
Q 037859          275 ------TSSKSILVIEDIDCS  289 (504)
Q Consensus       275 ------~~~~~Il~iDeiD~~  289 (504)
                            ...+.||||||+-.+
T Consensus       460 ~~~~~~l~~~~vlVIDEAsMv  480 (1102)
T PRK13826        460 NQGRDQLDNKTVFVLDEAGMV  480 (1102)
T ss_pred             ccCccCCCCCcEEEEECcccC
Confidence                  124679999998654

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=96.11  E-value=0.013  Score=64.10  Aligned_cols=26  Identities=38%  Similarity=0.761  Sum_probs=22.7

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhcC
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      ++|  +.+.||+|+|||||++.+++...
T Consensus       346 ~~G~~~~ivG~sGsGKSTL~~ll~g~~~  373 (529)
T TIGR02857       346 PPGERVALVGPSGAGKSTLLNLLLGFVD  373 (529)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            455  88999999999999999998763

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.11  E-value=0.013  Score=55.52  Aligned_cols=23  Identities=39%  Similarity=0.531  Sum_probs=19.7

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHH
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~  248 (504)
                      |-|  +|+.|+-|||||.|.+.+|.
T Consensus        26 P~GsL~lIEGd~~tGKSvLsqr~~Y   50 (235)
T COG2874          26 PVGSLILIEGDNGTGKSVLSQRFAY   50 (235)
T ss_pred             ccCeEEEEECCCCccHHHHHHHHHH
Confidence            445  67889999999999999985

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.09  E-value=0.0076  Score=61.50  Aligned_cols=25  Identities=24%  Similarity=0.448  Sum_probs=23.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++++|+.||+|+|||++++|++.++
T Consensus       144 ~~nilI~G~tGSGKTTll~aL~~~i  168 (323)
T PRK13833        144 RLNIVISGGTGSGKTTLANAVIAEI  168 (323)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            6779999999999999999999876

>PRK06761 hypothetical protein; Provisional

Probab=96.09  E-value=0.0046  Score=61.78  Aligned_cols=32  Identities=31%  Similarity=0.473  Sum_probs=26.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      -+++.||||+||||+++.++..+....+.++.
T Consensus         5 lIvI~G~~GsGKTTla~~L~~~L~~~g~~v~~   36 (282)
T PRK06761          5 LIIIEGLPGFGKSTTAKMLNDILSQNGIEVEL   36 (282)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCcCceEEEE
Confidence            47889999999999999999999766555543

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=96.08  E-value=0.011  Score=53.43  Aligned_cols=21  Identities=24%  Similarity=0.528  Sum_probs=18.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|++|+|||+|+.++...
T Consensus         2 i~~vG~~~~GKstLi~~l~~~   22 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLKTL   22 (167)
T ss_pred             EEEEecCCCCHHHHHHHHhhh
Confidence            678999999999999999754

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=96.07  E-value=0.0075  Score=62.47  Aligned_cols=24  Identities=33%  Similarity=0.483  Sum_probs=21.6

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +-+++.|.||||||.|+-.+|..+
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l   25 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKEL   25 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHh
Confidence            346889999999999999999988

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.07  E-value=0.012  Score=66.09  Aligned_cols=25  Identities=28%  Similarity=0.554  Sum_probs=22.8

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.|  +-+.|++|||||||+|-+.+..
T Consensus       497 ~~Ge~vaIvG~SGsGKSTL~KLL~gly  523 (709)
T COG2274         497 PPGEKVAIVGRSGSGKSTLLKLLLGLY  523 (709)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            667  9999999999999999999865

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.07  E-value=0.0093  Score=57.52  Aligned_cols=32  Identities=28%  Similarity=0.516  Sum_probs=27.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      ++++||||+|||+++..+|...   +.+++++++.
T Consensus        26 ~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e   60 (225)
T PRK09361         26 TQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE   60 (225)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            7899999999999999998644   6778877776

>PLN02459 probable adenylate kinase

Probab=96.07  E-value=0.0044  Score=61.09  Aligned_cols=28  Identities=25%  Similarity=0.526  Sum_probs=24.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      ++|.||||+|||++++.+|..+++..+.
T Consensus        32 ii~~G~PGsGK~T~a~~la~~~~~~~is   59 (261)
T PLN02459         32 WVFLGCPGVGKGTYASRLSKLLGVPHIA   59 (261)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEe
Confidence            7788999999999999999999876554

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.07  E-value=0.006  Score=58.20  Aligned_cols=32  Identities=19%  Similarity=0.200  Sum_probs=25.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC-CcEEEEec
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN-YDVYDLEL  259 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~-~~i~~l~~  259 (504)
                      -+.+.||+|||||||+++|+..++ ..+..++.
T Consensus         8 iI~I~G~sGsGKTTl~~~l~~~l~~~~~~~i~~   40 (209)
T PRK05480          8 IIGIAGGSGSGKTTVASTIYEELGDESIAVIPQ   40 (209)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceEEEeC
Confidence            467899999999999999999883 33444444

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=96.04  E-value=0.0046  Score=58.60  Aligned_cols=30  Identities=27%  Similarity=0.224  Sum_probs=26.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +.++|++|+|||++++.++..+|+++++.|
T Consensus         4 i~itG~~gsGKst~~~~l~~~~g~~~i~~D   33 (195)
T PRK14730          4 IGLTGGIASGKSTVGNYLAQQKGIPILDAD   33 (195)
T ss_pred             EEEECCCCCCHHHHHHHHHHhhCCeEeeCc
Confidence            678999999999999999998898887654

>PRK06851 hypothetical protein; Provisional

Probab=96.03  E-value=0.006  Score=63.19  Aligned_cols=43  Identities=35%  Similarity=0.539  Sum_probs=33.2

Q ss_pred             HHHHHhhcccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccc
Q 037859          219 EEIKKDLKKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTT  261 (504)
Q Consensus       219 ~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  261 (504)
                      +.+++.+.|-|+|.||||||||++++.++.++   |+++...-|+.
T Consensus       207 ~~l~~~~~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~  252 (367)
T PRK06851        207 PSLTEGVKNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGF  252 (367)
T ss_pred             HhHhcccceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCC
Confidence            34445557889999999999999999998877   66666655543

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=96.03  E-value=0.004  Score=60.11  Aligned_cols=22  Identities=36%  Similarity=0.567  Sum_probs=19.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++++|+||+|||++++.++...
T Consensus         1 ~vv~G~pGsGKSt~i~~~~~~~   22 (234)
T PF01443_consen    1 IVVHGVPGSGKSTLIKKLLKDR   22 (234)
T ss_pred             CEEEcCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999884

Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.02  E-value=0.0043  Score=47.26  Aligned_cols=22  Identities=45%  Similarity=0.810  Sum_probs=19.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .+|+||.|+|||++..|+.-.+
T Consensus        26 tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   26 TLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8999999999999999997654

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.02  E-value=0.0024  Score=60.03  Aligned_cols=25  Identities=36%  Similarity=0.600  Sum_probs=22.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      ++|.|+||+|||++++-+|..|.-.
T Consensus         4 iIlTGyPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           4 IILTGYPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             EEEecCCCCCchHHHHHHHHHHHHh
Confidence            6789999999999999999998443

>PHA00012 I assembly protein

Probab=96.01  E-value=0.017  Score=58.25  Aligned_cols=57  Identities=12%  Similarity=0.154  Sum_probs=35.8

Q ss_pred             cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCC
Q 037859          276 SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNY  355 (504)
Q Consensus       276 ~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~  355 (504)
                      +..+|++|||+...++.++.                         +... ...+.+.+...      ...+.-+|++|.+
T Consensus        80 p~gsLlVlDEaq~~fp~R~~-------------------------~sk~-p~~vie~l~~h------Rh~G~DvilITQ~  127 (361)
T PHA00012         80 SKNGLLVLDECGTWFNSRSW-------------------------NDKE-RQPVIDWFLHA------RKLGWDIIFIIQD  127 (361)
T ss_pred             CCCcEEEEECcccccCCCCc-------------------------CcCC-cHHHHHHHHHh------ccCCceEEEEcCC
Confidence            57799999999998743221                         1111 12233333332      2234678899999


Q ss_pred             CCCCChhhh
Q 037859          356 VDKLDPALI  364 (504)
Q Consensus       356 ~e~Ld~ALl  364 (504)
                      +..+|+.+.
T Consensus       128 ps~VDs~IR  136 (361)
T PHA00012        128 ISIMDKQAR  136 (361)
T ss_pred             HHHHhHHHH
Confidence            999998775

>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]

Probab=96.01  E-value=0.0036  Score=56.17  Aligned_cols=42  Identities=21%  Similarity=0.350  Sum_probs=31.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSL  271 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l  271 (504)
                      .+++.|++|||||+++++++.+|++++++-|  .+...++..+.
T Consensus        14 ~i~vmGvsGsGKSTigk~L~~~l~~~F~dgD--d~Hp~~NveKM   55 (191)
T KOG3354|consen   14 VIVVMGVSGSGKSTIGKALSEELGLKFIDGD--DLHPPANVEKM   55 (191)
T ss_pred             eEEEEecCCCChhhHHHHHHHHhCCcccccc--cCCCHHHHHHH
Confidence            4677899999999999999999999887543  44444444443

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=96.01  E-value=0.0099  Score=53.54  Aligned_cols=21  Identities=29%  Similarity=0.400  Sum_probs=19.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|+||+|||+|+.++++.
T Consensus         3 i~~vG~~~vGKTsli~~l~~~   23 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEG   23 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999999864

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>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=96.00  E-value=0.0044  Score=58.76  Aligned_cols=37  Identities=19%  Similarity=0.327  Sum_probs=27.7

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc-CCcEEEEecccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL-NYDVYDLELTTV  262 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~~~~~  262 (504)
                      |.-+++.||||+|||+++..+...+ +-+++.++...+
T Consensus        15 P~~~i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~   52 (199)
T PF06414_consen   15 PTLIIIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEF   52 (199)
T ss_dssp             -EEEEEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGG
T ss_pred             CEEEEEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHH
Confidence            6778999999999999999999888 666677765554

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.00  E-value=0.013  Score=60.93  Aligned_cols=34  Identities=32%  Similarity=0.359  Sum_probs=26.6

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      ++-++|.||+|+||||++..||..+   +..+..+++
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~a  277 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITT  277 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEec
Confidence            3568899999999999999999876   344554544

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=96.00  E-value=0.0057  Score=57.10  Aligned_cols=33  Identities=27%  Similarity=0.421  Sum_probs=25.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC---CcEEEEeccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN---YDVYDLELTT  261 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~  261 (504)
                      +.+.|+||+|||++++.|+..++   .++..+++.+
T Consensus         2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Dd   37 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDD   37 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhh
Confidence            46889999999999999999874   4444444443

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

>TIGR00235 udk uridine kinase

Probab=95.99  E-value=0.0044  Score=59.09  Aligned_cols=23  Identities=26%  Similarity=0.346  Sum_probs=20.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.+.||+|+|||||+++|++.++
T Consensus         9 i~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         9 IGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            55799999999999999999876

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

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.99  E-value=0.016  Score=58.99  Aligned_cols=33  Identities=15%  Similarity=0.116  Sum_probs=24.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHh---------cCCcEEEEeccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANF---------LNYDVYDLELTT  261 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~---------l~~~i~~l~~~~  261 (504)
                      ++++||||||||.|+..+|-.         .+..+++++...
T Consensus        99 teI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~  140 (313)
T TIGR02238        99 TEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEG  140 (313)
T ss_pred             EEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCC
Confidence            789999999999999877632         234566666544

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.

>cd01863 Rab18 Rab18 subfamily

Probab=95.94  E-value=0.026  Score=50.68  Aligned_cols=21  Identities=33%  Similarity=0.583  Sum_probs=18.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|+||+|||+|+.++.+.
T Consensus         3 i~v~G~~~~GKSsli~~l~~~   23 (161)
T cd01863           3 ILLIGDSGVGKSSLLLRFTDD   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999999864

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.94  E-value=0.0041  Score=57.65  Aligned_cols=25  Identities=32%  Similarity=0.448  Sum_probs=22.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -++|.||+|+|||++++.|++.+..
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~~~~   27 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEEDPN   27 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHccCcc
Confidence            4789999999999999999997644

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PRK05973 replicative DNA helicase; Provisional

Probab=95.94  E-value=0.0069  Score=59.06  Aligned_cols=32  Identities=25%  Similarity=0.133  Sum_probs=24.4

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      -+|+.|+||+|||+++-.+|.+.   |.+++++++
T Consensus        66 l~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSl  100 (237)
T PRK05973         66 LVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTL  100 (237)
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEE
Confidence            38899999999999988776543   666655544

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

Probab=95.93  E-value=0.0056  Score=57.59  Aligned_cols=29  Identities=24%  Similarity=0.299  Sum_probs=23.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc-CCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL-NYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l-~~~i~~l  257 (504)
                      +.+.|+||||||++|+.++..+ +..++.+
T Consensus         2 i~i~G~sgsGKTtla~~l~~~~~~~~~i~~   31 (187)
T cd02024           2 VGISGVTNSGKTTLAKLLQRILPNCCVIHQ   31 (187)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeEEcc
Confidence            4578999999999999999998 4444433

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

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.93  E-value=0.0073  Score=57.01  Aligned_cols=31  Identities=23%  Similarity=0.274  Sum_probs=23.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC-CcEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN-YDVYDLEL  259 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~-~~i~~l~~  259 (504)
                      +.|.||+|+|||+++++|++.++ ..+..+..
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l~~~~~~v~~~   33 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQLGNPKVVIISQ   33 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCCeEEEEe
Confidence            45789999999999999999873 23444433

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=95.91  E-value=0.013  Score=56.78  Aligned_cols=33  Identities=15%  Similarity=0.252  Sum_probs=25.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---------CCcEEEEeccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---------NYDVYDLELTT  261 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~  261 (504)
                      +.|+||||||||+++..+|...         +..+++++...
T Consensus        22 ~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~   63 (235)
T cd01123          22 TEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG   63 (235)
T ss_pred             EEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence            7899999999999999997543         24666666544

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 .

>KOG1808 consensus AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=95.91  E-value=0.019  Score=69.42  Aligned_cols=86  Identities=16%  Similarity=0.261  Sum_probs=60.5

Q ss_pred             CCccccc-cccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHH------
Q 037859          204 HPATFDT-LAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRS------  270 (504)
Q Consensus       204 ~p~~f~~-~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~------  270 (504)
                      +|..+++ +++.+.+++.+.+..      +..+||-||.|+|||++++-+|..+|.++..++...-.+-.++..      
T Consensus       411 ~~~~~~~~~i~T~~vq~~la~~~~a~~~~~~pillqG~tssGKtsii~~la~~~g~~~vrinnhehtd~qeyig~y~~~~  490 (1856)
T KOG1808|consen  411 ELTSEATHYIITPRVQKNLADLARAISSGKFPILLQGPTSSGKTSIIKELARATGKNIVRINNHEHTDLQEYIGTYVADD  490 (1856)
T ss_pred             ccccccceeeccHHHHHHHHHHHHHHhcCCCCeEEecCcCcCchhHHHHHHHHhccCceehhccccchHHHHHHhhhcCC
Confidence            3444555 666676665544443      347999999999999999999999999999987766544333322      


Q ss_pred             ----------HHHhccCCeEEEEeccccc
Q 037859          271 ----------LLIDTSSKSILVIEDIDCS  289 (504)
Q Consensus       271 ----------l~~~~~~~~Il~iDeiD~~  289 (504)
                                +...+...+.+++|++...
T Consensus       491 ~g~l~freg~LV~Alr~G~~~vlD~lnla  519 (1856)
T KOG1808|consen  491 NGDLVFREGVLVQALRNGDWIVLDELNLA  519 (1856)
T ss_pred             CCCeeeehhHHHHHHHhCCEEEecccccc
Confidence                      2222346789999999864

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=95.90  E-value=0.0059  Score=61.91  Aligned_cols=33  Identities=24%  Similarity=0.442  Sum_probs=27.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      +-+++.||+|||||++|..+|..++..++..|.
T Consensus         5 ~~i~i~GptgsGKt~la~~la~~~~~~iis~Ds   37 (307)
T PRK00091          5 KVIVIVGPTASGKTALAIELAKRLNGEIISADS   37 (307)
T ss_pred             eEEEEECCCCcCHHHHHHHHHHhCCCcEEeccc
Confidence            457889999999999999999999877665544

>TIGR00017 cmk cytidylate kinase

Probab=95.88  E-value=0.0062  Score=58.71  Aligned_cols=28  Identities=43%  Similarity=0.647  Sum_probs=25.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      +.+.||+|||||++++.+|..+++++++
T Consensus         5 i~i~G~~GsGKst~~~~la~~~~~~~~~   32 (217)
T TIGR00017         5 IAIDGPSGAGKSTVAKAVAEKLGYAYLD   32 (217)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceee
Confidence            5678999999999999999999987664

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=95.88  E-value=0.033  Score=51.28  Aligned_cols=23  Identities=17%  Similarity=0.306  Sum_probs=20.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +-++|.|+||+|||+|+..+...
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~   24 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEG   24 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999999753

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional

Probab=95.87  E-value=0.0055  Score=67.18  Aligned_cols=32  Identities=19%  Similarity=0.336  Sum_probs=29.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      -++|.|+||||||++.+.+|..++++++++|.
T Consensus         8 ~i~LiG~~GaGKttvg~~LA~~L~~~fiD~D~   39 (542)
T PRK14021          8 QAVIIGMMGAGKTRVGKEVAQMMRLPFADADV   39 (542)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCEEEchH
Confidence            47899999999999999999999999999875

>PRK00081 coaE dephospho-CoA kinase; Reviewed

Probab=95.87  E-value=0.0069  Score=57.26  Aligned_cols=31  Identities=35%  Similarity=0.334  Sum_probs=26.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      -+.|+|++|||||++++.++. +|+++++.|.
T Consensus         4 ~i~ltG~~gsGKst~~~~l~~-~g~~~i~~D~   34 (194)
T PRK00081          4 IIGLTGGIGSGKSTVANLFAE-LGAPVIDADA   34 (194)
T ss_pred             EEEEECCCCCCHHHHHHHHHH-cCCEEEEecH
Confidence            478999999999999999998 8888776653

>cd03239 ABC_SMC_head The structural maintenance of chromosomes (SMC) proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms

Probab=95.85  E-value=0.048  Score=50.83  Aligned_cols=22  Identities=36%  Similarity=0.677  Sum_probs=18.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -.++||.|+|||++..||.-.+
T Consensus        25 ~~i~G~NGsGKSnil~Ai~~~~   46 (178)
T cd03239          25 NAIVGPNGSGKSNIVDAICFVL   46 (178)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999996554

SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and each has five distinct domains: amino- and carboxy-terminal globular domains, which contain sequences characteristic of ATPases, two coiled-coil regions separating the terminal domains , and a central flexible hinge. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair, and epigenetic silencing of gene expression.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.84  E-value=0.0063  Score=54.19  Aligned_cols=25  Identities=32%  Similarity=0.606  Sum_probs=21.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      +.|.||+|+|||++++.|+..+...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~~~~   26 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEFDPN   26 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcCCcc
Confidence            5688999999999999999987544

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=95.83  E-value=0.048  Score=48.69  Aligned_cols=21  Identities=24%  Similarity=0.442  Sum_probs=18.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|+||+|||+|+.++.+.
T Consensus         4 i~iiG~~~vGKTsl~~~~~~~   24 (162)
T cd04138           4 LVVVGAGGVGKSALTIQLIQN   24 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999999863

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>PRK08356 hypothetical protein; Provisional

Probab=95.83  E-value=0.007  Score=57.18  Aligned_cols=25  Identities=16%  Similarity=0.166  Sum_probs=21.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDV  254 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i  254 (504)
                      ++|+||||+|||++|+.|+. .+++.
T Consensus         8 i~~~G~~gsGK~t~a~~l~~-~g~~~   32 (195)
T PRK08356          8 VGVVGKIAAGKTTVAKFFEE-KGFCR   32 (195)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCcE
Confidence            67899999999999999964 67663

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=95.83  E-value=0.0079  Score=59.59  Aligned_cols=33  Identities=24%  Similarity=0.180  Sum_probs=26.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHh---cCCcEEEEecc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF---LNYDVYDLELT  260 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~  260 (504)
                      -+|++||||||||+++..+|..   .|.++.++++.
T Consensus        38 ~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~E   73 (259)
T TIGR03878        38 VINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVE   73 (259)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEec
Confidence            3889999999999999987653   26677777665

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PF13479 AAA_24: AAA domain

Probab=95.83  E-value=0.0058  Score=58.69  Aligned_cols=60  Identities=28%  Similarity=0.471  Sum_probs=37.4

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcE-EEEecc-------------ccCChHHHHHHHHhc----cCCeEEEEeccccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDV-YDLELT-------------TVQDNSELRSLLIDT----SSKSILVIEDIDCS  289 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i-~~l~~~-------------~~~~~~~l~~l~~~~----~~~~Il~iDeiD~~  289 (504)
                      -+|+|||||+|||+++..+    +.++ ++++-+             .+.+-.++...+...    ..--.|+||-++.+
T Consensus         5 ~~lIyG~~G~GKTt~a~~~----~k~l~id~E~g~~~~~~~~~~~~i~i~s~~~~~~~~~~l~~~~~~y~tiVIDsis~~   80 (213)
T PF13479_consen    5 KILIYGPPGSGKTTLAASL----PKPLFIDTENGSDSLKFLDDGDVIPITSWEDFLEALDELEEDEADYDTIVIDSISWL   80 (213)
T ss_pred             EEEEECCCCCCHHHHHHhC----CCeEEEEeCCCccchhhhcCCCeeCcCCHHHHHHHHHHHHhccCCCCEEEEECHHHH
Confidence            4799999999999999988    2222 122222             112334556655332    34469999999876


Q ss_pred             cc
Q 037859          290 LD  291 (504)
Q Consensus       290 ~~  291 (504)
                      ..
T Consensus        81 ~~   82 (213)
T PF13479_consen   81 ED   82 (213)
T ss_pred             HH
Confidence            43

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=95.82  E-value=0.017  Score=52.14  Aligned_cols=21  Identities=24%  Similarity=0.423  Sum_probs=18.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|+||+|||+|+.++.+.
T Consensus         3 i~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        3 LVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            578899999999999999763

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=95.80  E-value=0.02  Score=64.98  Aligned_cols=25  Identities=44%  Similarity=0.731  Sum_probs=22.5

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++|  +.+.||+|+||||+++.|++.+
T Consensus       505 ~~Ge~vaIvG~SGsGKSTLl~lL~gl~  531 (711)
T TIGR00958       505 HPGEVVALVGPSGSGKSTVAALLQNLY  531 (711)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            445  8999999999999999999876

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=95.80  E-value=0.0077  Score=58.12  Aligned_cols=31  Identities=29%  Similarity=0.457  Sum_probs=22.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc----CCcEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL----NYDVYDLEL  259 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~  259 (504)
                      +|+.||||||||+++..++...    |.+++++.+
T Consensus        22 ~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~   56 (226)
T PF06745_consen   22 VLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSF   56 (226)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEES
T ss_pred             EEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEe
Confidence            8999999999999998765322    666666654

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 ....

>PRK09354 recA recombinase A; Provisional

Probab=95.79  E-value=0.024  Score=58.36  Aligned_cols=65  Identities=14%  Similarity=0.316  Sum_probs=39.6

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHh---cCCcEEEEecccc---------------------CChHHHHHH---HHhcc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANF---LNYDVYDLELTTV---------------------QDNSELRSL---LIDTS  276 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~~---------------------~~~~~l~~l---~~~~~  276 (504)
                      |+|  +++|||||||||+|+-.++..   .+....+++...-                     .+.++...+   +....
T Consensus        58 p~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~s~  137 (349)
T PRK09354         58 PRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSG  137 (349)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhcC
Confidence            455  789999999999999876533   3545555544331                     111111111   22234


Q ss_pred             CCeEEEEecccccc
Q 037859          277 SKSILVIEDIDCSL  290 (504)
Q Consensus       277 ~~~Il~iDeiD~~~  290 (504)
                      ...+|+||=+-++.
T Consensus       138 ~~~lIVIDSvaaL~  151 (349)
T PRK09354        138 AVDLIVVDSVAALV  151 (349)
T ss_pred             CCCEEEEeChhhhc
Confidence            67899999888764

>TIGR00416 sms DNA repair protein RadA

Probab=95.77  E-value=0.031  Score=59.90  Aligned_cols=31  Identities=35%  Similarity=0.464  Sum_probs=24.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      +|++|+||+|||+|+..+|..+   +.++++++.
T Consensus        97 ilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~  130 (454)
T TIGR00416        97 ILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSG  130 (454)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEC
Confidence            7899999999999999987755   345666654

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)).

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	504
4b4t_M	434	Near-Atomic Resolution Structural Model Of The Yeas		2e-04
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		8e-04

>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 434

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 24/48 (50%), Positives = 32/48 (66%), Gaps = 4/48 (8%)
Query: 328 TLSGLLNFIDGLWSASGEERIIVFT-TNYVDKLDPALIRRGRMDKHIE 374
           T+  LLN +DG    S ++R+ V   TN VD LDPAL+R GR+D+ IE
Sbjct: 304 TMLELLNQLDGF---SSDDRVKVLAATNRVDVLDPALLRSGRLDRKIE 348

>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 405

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 21/47 (44%), Positives = 31/47 (65%), Gaps = 2/47 (4%)
Query: 328 TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIE 374
           T+  LLN +DG  ++   +  I+  TN +D LDPAL+R GR+D+ IE
Sbjct: 271 TMLELLNQLDGFETSKNIK--IIMATNRLDILDPALLRPGRIDRKIE 315

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	504
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-16
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-07
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-15
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-13
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	2e-14
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	5e-13
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	3e-11
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	3e-11
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	5e-11
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	2e-10
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	9e-10
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	2e-09
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	8e-08
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	1e-07
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	3e-06
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	3e-06
2chg_A	226	Replication factor C small subunit; DNA-binding pr	4e-06
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	8e-06
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	1e-05
2chq_A	319	Replication factor C small subunit; DNA-binding pr	1e-05
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	1e-05
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	3e-05
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	3e-05
2qgz_A	308	Helicase loader, putative primosome component; str	1e-04
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	1e-04
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	2e-04
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	2e-04
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	3e-04
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	3e-04
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	4e-04
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	4e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 81.1 bits (199), Expect = 3e-16
 Identities = 72/461 (15%), Positives = 152/461 (32%), Gaps = 108/461 (23%)

Query: 74  QNYLSTTASLHATRFKADVVKDSQSIVLSMDDRQEVTDEFKGIKVWWVLGK----NIPKT 129
            +++      H  ++K D++   +   +   D ++V D  K      +L K    +I  +
Sbjct: 4   HHHMDFETGEHQYQYK-DILSVFEDAFVDNFDCKDVQDMPKS-----ILSKEEIDHIIMS 57

Query: 130 QSFSFYPATGEKRYYRLTFHKSHRELITGPYVNHVLAGG-----KAITVKNRQRKLYSNN 184
                                S +E +   +V  VL          I  + RQ  +    
Sbjct: 58  ------KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM---- 107

Query: 185 PSKNWYGWRSTKWS--HVFFEHPATFDTLAMETKKKEEIKKDLK-----KGYLLYGPPGT 237
            ++ +   R   ++   VF ++  +        +   ++++ L      K  L+ G  G+
Sbjct: 108 MTRMYIEQRDRLYNDNQVFAKYNVS------RLQPYLKLRQALLELRPAKNVLIDGVLGS 161

Query: 238 GKSTMIAAMAN------FLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLD 291
           GK+ +   +         +++ ++ L L        +  +L     +    I+    S  
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ----IDPNWTSRS 217

Query: 292 LTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEE----- 346
                 K +      E +  ++ K  E+            LL  +  + +A         
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYEN-----------CLL-VLLNVQNAKAWNAFNLS 265

Query: 347 -RIIVFTTNY---VDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHEL-YAV 401
            +I++ TT +    D L  A      +D H  M+    E   +L K YLD    +L   V
Sbjct: 266 CKILL-TTRFKQVTDFLSAATTTHISLD-HHSMTLTPDEVKSLLLK-YLDCRPQDLPREV 322

Query: 402 IESMPAETNMTPADVAENLM-----PKCDEDDTETCLKNLIEALKAAKEEAIKKTEEEAR 456
           + + P   ++    + + L         + D   T +++ +  L+            E R
Sbjct: 323 LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE----------PAEYR 372

Query: 457 KFSRIENRYRK-SKFSSTSNPTSKTHNNLHTQTIPTQNLSM 496
           K       + + S F  +++             IPT  LS+
Sbjct: 373 K------MFDRLSVFPPSAH-------------IPTILLSL 394

>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 = 62.9 bits (152), Expect = 1e-10
 Identities = 74/472 (15%), Positives = 136/472 (28%), Gaps = 107/472 (22%)

Query: 34  QGYVEKYSQKLFRILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTTASLHATRFKADVV 93
                  + +LF  L    E    +F  + L+         NY         +  K +  
Sbjct: 57  SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLR--------INY-----KFLMSPIKTEQR 103

Query: 94  KDSQSIVLSMDDRQEVTDEFKGIKVWWVLGKNIPKTQSFSFYPATGEKRYYRLTFHKSHR 153
           + S    + ++ R          +++     N    Q F+ Y  +  + Y +L   ++  
Sbjct: 104 QPSMMTRMYIEQRD---------RLY-----NDN--QVFAKYNVSRLQPYLKL--RQALL 145

Query: 154 ELITGPYVN-HVLAG-GKAITVKN--RQRKLYSNNPSKNWYGWRSTKWSHVFFEHPATFD 209
           EL     V    + G GK     +     K+      K            +F+       
Sbjct: 146 ELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK------------IFW------- 186

Query: 210 TLAM-ETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSEL 268
            L +      E + + L+K      P  T +S   + +   L       EL  +  +   
Sbjct: 187 -LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI--KLRIHSIQAELRRLLKSKPY 243

Query: 269 -RSLLI--DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKS 325
              LL+  +  +       ++ C + LT  R K+            I         +   
Sbjct: 244 ENCLLVLLNVQNAKAWNAFNLSCKILLT-TRFKQVTDFLSAATTTHISLDHHSMTLTPDE 302

Query: 326 KVTLSGLLNFIDGLWSASGEERIIVFTTN-YVDKLDPALIRRG-------------RMDK 371
             +L  LL +   L     +    V TTN     +    IR G             ++  
Sbjct: 303 VKSL--LLKY---LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357

Query: 372 HIEMSYCCFEAFKVLAKNYLDIDSH-ELYAVIESMPAETNMTPADVAENLMPKCDEDDTE 430
            IE S            N L+   + +++  +   P   ++ P  +   +     + D  
Sbjct: 358 IIESSL-----------NVLEPAEYRKMFDRLSVFPPSAHI-PTILLSLIWFDVIKSDVM 405

Query: 431 TCLKNLIE---ALKAAKEEAI----------KKTEEEARKFSRIENRYRKSK 469
             +  L +     K  KE  I           K E E      I + Y   K
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPK 457

>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 = 52.2 bits (124), Expect = 3e-07
 Identities = 70/551 (12%), Positives = 172/551 (31%), Gaps = 167/551 (30%)

Query: 37  VEKYSQKLFRILYPYIEMTFHEFSGDRLKRSEAFSAIQNYLSTT----ASLHATRFKADV 92
           V+K+ +++ RI Y ++              +  +   ++ L       A  + +R +  +
Sbjct: 79  VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYL 138

Query: 93  --------VKDSQSIVL-SM--------------DDRQEVTDEFKGIKVWWVLGKNIPKT 129
                   ++ ++++++  +                + +   +F   K++W+   N+   
Sbjct: 139 KLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF---KIFWL---NLKNC 192

Query: 130 QSFSFYPATGEKRYYRLT--FHKSHRELITGPYVNHVLAGGKAITVKNRQRKLYSNNPSK 187
            S        +K  Y++   +              H        +++   R+L  + P +
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH--------SIQAELRRLLKSKPYE 244

Query: 188 N--------WYGW---------------R---------STKWSHVFFEH-PATF---DTL 211
           N                           R         +   +H+  +H   T    +  
Sbjct: 245 NCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304

Query: 212 AMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAM-----ANFLNYDVYDLE-LTTVQDN 265
           ++  K  +   +DL +  L   P       +IA       A + N+   + + LTT+ ++
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLS---IIAESIRDGLATWDNWKHVNCDKLTTIIES 361

Query: 266 S-------ELRSLLIDTS--------SKSILVI----------EDIDCSL---------- 290
           S       E R +    S           +L +            +   L          
Sbjct: 362 SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQP 421

Query: 291 --------DLTGQREKKKEKDEDKE-EKNPIEK--KEKEDGGSKKSKVTLSG-LLNFIDG 338
                    +    E K + + +    ++ ++     K           L     + I G
Sbjct: 422 KESTISIPSI--YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI-G 478

Query: 339 --LWSASGEERIIVFTTNYVD------KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY 390
             L +    ER+ +F   ++D      K+           +H   ++    +   +    
Sbjct: 479 HHLKNIEHPERMTLFRMVFLDFRFLEQKI-----------RHDSTAWNASGS---ILNTL 524

Query: 391 LDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIE-ALKAAKEEAIK 449
             +  ++ Y + ++ P    +   +   + +PK +E+   +   +L+  AL  A++EAI 
Sbjct: 525 QQLKFYKPY-ICDNDPKYERLV--NAILDFLPKIEENLICSKYTDLLRIALM-AEDEAI- 579

Query: 450 KTEEEARKFSR 460
             EE  ++  R
Sbjct: 580 -FEEAHKQVQR 589

>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 = 74.4 bits (183), Expect = 2e-14
 Identities = 47/181 (25%), Positives = 78/181 (43%), Gaps = 46/181 (25%)

Query: 204 HPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE----L 259
           HPA F  + ++  +          G LLYGPPGTGK+ +  A+AN      + +     +
Sbjct: 226 HPALFKAIGVKPPR----------GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM 275

Query: 260 TTVQDNSE--LRSLLIDTSSK--SILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKK 315
           + +   SE  LR    +      +I+ I+++D    +  +REK   + E +         
Sbjct: 276 SKLAGESESNLRKAFEEAEKNAPAIIFIDELDA---IAPKREKTHGEVERR--------- 323

Query: 316 EKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVF-TTNYVDKLDPALIRRGRMDKHIE 374
                        +S LL  +DGL        +IV   TN  + +DPAL R GR D+ ++
Sbjct: 324 ------------IVSQLLTLMDGL---KQRAHVIVMAATNRPNSIDPALRRFGRFDREVD 368

Query: 375 M 375
           +
Sbjct: 369 I 369

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score = 68.4 bits (168), Expect = 5e-13
 Identities = 51/163 (31%), Positives = 73/163 (44%), Gaps = 45/163 (27%)

Query: 227 KGYLLYGPPGTGKSTMIA-AMANFLNYDVYDLELTTVQDNSELRSLLIDTSSK------- 278
           KG LLYGPPGTGK T++A A+A     +   + +      SEL    I   +        
Sbjct: 52  KGILLYGPPGTGK-TLLAKAVAT--ETNATFIRVV----GSELVKKFIGEGASLVKDIFK 104

Query: 279 -------SILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSG 331
                  SI+ I++ID    +  +R                   +   GG ++ + TL  
Sbjct: 105 LAKEKAPSIIFIDEIDA---IAAKRT------------------DALTGGDREVQRTLMQ 143

Query: 332 LLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIE 374
           LL  +DG   A G+ +II   TN  D LDPA++R GR D+ IE
Sbjct: 144 LLAEMDGF-DARGDVKIIG-ATNRPDILDPAILRPGRFDRIIE 184

>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 = 63.4 bits (155), Expect = 3e-11
 Identities = 67/305 (21%), Positives = 112/305 (36%), Gaps = 89/305 (29%)

Query: 203 EHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIA------AMANFLNYDVYD 256
           EHP  F    M   K          G L YGPPG GK T++A        ANF++  +  
Sbjct: 36  EHPDKFLKFGMTPSK----------GVLFYGPPGCGK-TLLAKAIANECQANFIS--IKG 82

Query: 257 LELTT--VQDNSE--LRSLLID--TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKN 310
            EL T    + SE  +R +      ++  +L  +++D    +   R              
Sbjct: 83  PELLTMWFGE-SEANVREIFDKARQAAPCVLFFDELDS---IAKARGG------------ 126

Query: 311 PIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVF---TTNYVDKLDPALIRRG 367
                   DGG    +V ++ +L  +DG+       +  VF    TN  D +DPA++R G
Sbjct: 127 -----NIGDGGGAADRV-INQILTEMDGM-----STKKNVFIIGATNRPDIIDPAILRPG 175

Query: 368 RMDKHIEMSYCCFEA----FKVLAKNY---LDIDSHEL---------------------Y 399
           R+D+ I +     ++     K   +      D+D   L                      
Sbjct: 176 RLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKL 235

Query: 400 AVIESMPAETNMTPADVAENLMPKCDEDDTETCL--KNLIEALKAAK----EEAIKKTEE 453
           A+ ES+ +E              + +EDD    +   +  EA++ A+    +  I+K E 
Sbjct: 236 AIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVSDNDIRKYEM 295

Query: 454 EARKF 458
            A+  
Sbjct: 296 FAQTL 300

>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 = 62.8 bits (153), Expect = 3e-11
 Identities = 41/257 (15%), Positives = 82/257 (31%), Gaps = 42/257 (16%)

Query: 209 DTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDL-------ELTT 261
           D   +  ++ +   +      LL GPP +GK+ + A +A   N+    +         + 
Sbjct: 47  DDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSE 106

Query: 262 VQDNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKED 319
                 ++ +  D   S  S +V++DI+  LD                   PI       
Sbjct: 107 TAKCQAMKKIFDDAYKSQLSCVVVDDIERLLD-----------------YVPI------- 142

Query: 320 GGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIE--MSY 377
            G + S + L  LL  +       G + +I+ TT+  D L   +         I      
Sbjct: 143 -GPRFSNLVLQALLVLLKKA-PPQGRKLLIIGTTSRKDVLQ-EMEMLNAFSTTIHVPNIA 199

Query: 378 CCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLI 437
              +  + L          E   + + +  +           L+    + D E  ++  +
Sbjct: 200 TGEQLLEALELLGN-FKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFL 258

Query: 438 EALKAAKEEAIKKTEEE 454
             L   +EE     + +
Sbjct: 259 ALL---REEGASPLDFK 272

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score = 62.5 bits (152), Expect = 5e-11
 Identities = 32/168 (19%), Positives = 53/168 (31%), Gaps = 41/168 (24%)

Query: 227 KGYLLYGPPGTGKSTMIAAMA-----NFLNYDVYDLELTTVQDNSEL-RSL------LID 274
               ++G  G GKS     +      N +     +LE     + ++L R        +I 
Sbjct: 37  LILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIR 96

Query: 275 TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV--TLSGL 332
             +   L I D+D      G+                               V  TL  +
Sbjct: 97  KGNMCCLFINDLDA---GAGRMG------------------GTTQYTVNNQMVNATLMNI 135

Query: 333 LNF-----IDGLWSASGEERI-IVFTTNYVDKLDPALIRRGRMDKHIE 374
            +      + G+++     R+ I+ T N    L   LIR GRM+K   
Sbjct: 136 ADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW 183

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score = 61.2 bits (149), Expect = 2e-10
 Identities = 49/182 (26%), Positives = 71/182 (39%), Gaps = 37/182 (20%)

Query: 227 KGYLLYGPPGTGKSTMIA------AMANFLNYDVYDLELTTVQDNSELRSLLIDTSSK-- 278
           KG LL+GPPG GK T++A        A FLN     L    V D  +L   L   +    
Sbjct: 55  KGLLLFGPPGNGK-TLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQ 113

Query: 279 -SILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID 337
            SI+ I+++D    L  +R                     E   S++ K   +  L   D
Sbjct: 114 PSIIFIDEVDS---LLSERS------------------SSEHEASRRLK---TEFLVEFD 149

Query: 338 GLWSASGEERIIVF-TTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSH 396
           GL      +RI+V   TN   +LD A +R  R  K + +S    +  ++L    L     
Sbjct: 150 GLPGNPDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGS 207

Query: 397 EL 398
            L
Sbjct: 208 PL 209

>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 = 59.4 bits (144), Expect = 9e-10
 Identities = 43/181 (23%), Positives = 74/181 (40%), Gaps = 36/181 (19%)

Query: 227 KGYLLYGPPGTGKSTMIA------AMANFLNYDVYDLELTTVQDNSELRSLLIDTSSK-- 278
           KG LL+GPPGTGK T+I       + A F +     L    V +  ++   L   +    
Sbjct: 118 KGILLFGPPGTGK-TLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQ 176

Query: 279 -SILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID 337
            +++ I++ID    L  QR                   + E   S++ K   +  L  +D
Sbjct: 177 PAVIFIDEIDS---LLSQR------------------GDGEHESSRRIK---TEFLVQLD 212

Query: 338 GLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHE 397
           G  ++S +  ++V  TN   ++D A  R  R+ K + +      A K +  N +  +   
Sbjct: 213 GATTSSEDRILVVGATNRPQEIDEAARR--RLVKRLYIPLPEASARKQIVINLMSKEQCC 270

Query: 398 L 398
           L
Sbjct: 271 L 271

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score = 58.3 bits (141), Expect = 2e-09
 Identities = 50/182 (27%), Positives = 79/182 (43%), Gaps = 38/182 (20%)

Query: 227 KGYLLYGPPGTGKSTMIA------AMANFLNYDVYDLELTTVQDNSELRSLLIDTSSK-- 278
           +G LL+GPPG GK TM+A      + A F N     L    V +  +L   L   + +  
Sbjct: 149 RGLLLFGPPGNGK-TMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQ 207

Query: 279 -SILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID 337
            SI+ I+ +D    L  +R                  +E E   S++ K   +  L   D
Sbjct: 208 PSIIFIDQVDS---LLCER------------------REGEHDASRRLK---TEFLIEFD 243

Query: 338 GLWSASGEERIIVF-TTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSH 396
           G+  ++G++R++V   TN   +LD A++R  R  K + +S    E   +L KN L     
Sbjct: 244 GV-QSAGDDRVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNLLCKQGS 300

Query: 397 EL 398
            L
Sbjct: 301 PL 302

>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 = 53.1 bits (128), Expect = 8e-08
 Identities = 42/159 (26%), Positives = 71/159 (44%), Gaps = 43/159 (27%)

Query: 227 KGYLLYGPPGTGKSTMIA------AMANFLNYDVYDLELTT--VQDNSELRSLLIDTSSK 278
            G LLYGPPGTGK + +A      A + F +  V   +L +  + ++ +L   L   + +
Sbjct: 52  SGILLYGPPGTGK-SYLAKAVATEANSTFFS--VSSSDLVSKWMGESEKLVKQLFAMARE 108

Query: 279 ---SILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNF 335
              SI+ I+ +D    LTG R                   E E   S++ K   + LL  
Sbjct: 109 NKPSIIFIDQVD---ALTGTRG------------------EGESEASRRIK---TELLVQ 144

Query: 336 IDGLWSASGEERIIVF-TTNYVDKLDPALIRRGRMDKHI 373
           ++G+   +  + ++V   TN   +LD A+ R  R ++ I
Sbjct: 145 MNGV--GNDSQGVLVLGATNIPWQLDSAIRR--RFERRI 179

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score = 52.8 bits (127), Expect = 1e-07
 Identities = 40/158 (25%), Positives = 65/158 (41%), Gaps = 40/158 (25%)

Query: 227 KGYLLYGPPGTGKSTMIA-------AMANFLNYDVYDLELTTVQDNSELRSLLIDTSSK- 278
           +G LL+GPPGTGK + +A         + F +    DL    + ++ +L   L   + + 
Sbjct: 46  RGILLFGPPGTGK-SYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLAREN 104

Query: 279 --SILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI 336
             SI+ I++ID    L G R                   E E   +++ K   +  L  +
Sbjct: 105 KPSIIFIDEIDS---LCGSR------------------SENESEAARRIK---TEFLVQM 140

Query: 337 DGLWSASGEERIIVF-TTNYVDKLDPALIRRGRMDKHI 373
            G+      + I+V   TN    LD A+ R  R +K I
Sbjct: 141 QGV--GVDNDGILVLGATNIPWVLDSAIRR--RFEKRI 174

>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 = 47.6 bits (114), Expect = 3e-06
 Identities = 52/191 (27%), Positives = 84/191 (43%), Gaps = 46/191 (24%)

Query: 207 TFDTLA-METKKKE--EIKKDLK-------------KGYLLYGPPGTGKSTM---IAAMA 247
           +F  +A M   K E  E    LK             KG LL GPPG GK+ +   +A  A
Sbjct: 4   SFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA 63

Query: 248 N--FLNYDVYD-LELTTVQDNSELRSLLIDTSSKS--ILVIEDIDCSLDLTGQREKKKEK 302
              FL     + +E+      + +RSL  +  +++  I+ I++ID    +  +R      
Sbjct: 64  QVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDA---VGKKRSTTMSG 120

Query: 303 DEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPA 362
             + EE+                  TL+ LL  +DG+ +      I++ +TN  D LD A
Sbjct: 121 FSNTEEEQ-----------------TLNQLLVEMDGMGTTDH--VIVLASTNRADILDGA 161

Query: 363 LIRRGRMDKHI 373
           L+R GR+D+H+
Sbjct: 162 LMRPGRLDRHV 172

>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 = 48.3 bits (115), Expect = 3e-06
 Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 2/46 (4%)

Query: 214 ETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL 259
             K   +    + +  +LYGPPG GK+T    +A  L YD+  LE 
Sbjct: 65  SFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDI--LEQ 108

>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 = 46.8 bits (112), Expect = 4e-06
 Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 7/62 (11%)

Query: 205 PATFDTLAMETKKKEEIKKDLKKGY----LLYGPPGTGKSTMIAAMANFLNYDVYD---L 257
           P T D +  + +  + +K  +++      L  GPPGTGK+    A+A  L  + +    +
Sbjct: 13  PRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFI 72

Query: 258 EL 259
           E+
Sbjct: 73  EM 74

>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 = 47.3 bits (112), Expect = 8e-06
 Identities = 47/183 (25%), Positives = 76/183 (41%), Gaps = 40/183 (21%)

Query: 227 KGYLLYGPPGTGKSTMIAAMA------NFLNYDVYDLELTTVQDNSE--LRSL--LIDTS 276
           +G LL+GPPGTGKS +  A+A       F +    DL ++     SE  +++L  L   +
Sbjct: 168 RGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDL-VSKWLGESEKLVKNLFQLAREN 226

Query: 277 SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI 336
             SI+ I++ID    L G R                   E E   +++ K   +  L  +
Sbjct: 227 KPSIIFIDEIDS---LCGSR------------------SENESEAARRIK---TEFLVQM 262

Query: 337 DGLWSASGEERIIVF-TTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDS 395
            G+      + I+V   TN    LD A+ R  R +K I +      A   + + +L    
Sbjct: 263 QGV--GVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHLGSTQ 318

Query: 396 HEL 398
           + L
Sbjct: 319 NSL 321

>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 = 46.6 bits (111), Expect = 1e-05
 Identities = 20/62 (32%), Positives = 28/62 (45%), Gaps = 7/62 (11%)

Query: 205 PATFDTLAMETKKKEEIKKDLKKGY----LLYGPPGTGKSTMIAAMANFL---NYDVYDL 257
           P   D +  +    + +K  +K G     L  GPPG GK+T   A+A  L   N+    L
Sbjct: 21  PQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFL 80

Query: 258 EL 259
           EL
Sbjct: 81  EL 82

>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 = 46.2 bits (110), Expect = 1e-05
 Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 7/62 (11%)

Query: 205 PATFDTLAMETKKKEEIKKDLKKGY----LLYGPPGTGKSTMIAAMANFLNYDVYD---L 257
           P T D +  + +  + +K  +++      L  GPPGTGK+    A+A  L  + +    +
Sbjct: 13  PRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFI 72

Query: 258 EL 259
           E+
Sbjct: 73  EM 74

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score = 45.6 bits (109), Expect = 1e-05
 Identities = 33/155 (21%), Positives = 60/155 (38%), Gaps = 40/155 (25%)

Query: 321 GSKKSKVT---LSGLLNFIDGLWSASGEERIIVF---TTNYVDKLDPALIRRGRMDKHIE 374
             +++  +   ++ LL  +DGL     E R  VF    TN  D +DPA++R GR+DK + 
Sbjct: 120 SDRETGASVRVVNQLLTEMDGL-----EARQQVFIMAATNRPDIIDPAILRPGRLDKTLF 174

Query: 375 MSYCCFEA----FKVLAKNYL------DIDSHELYAVIESMPAETNMTPADVA------- 417
           +            K + KN        D++   L A+   +  +   T AD++       
Sbjct: 175 VGLPPPADRLAILKTITKNGTKPPLDADVN---LEAIAGDLRCD-CYTGADLSALVREAS 230

Query: 418 --------ENLMPKCDEDDTETCLKNLIEALKAAK 444
                          ++ + +   K+  EA K  +
Sbjct: 231 ICALRQEMARQKSGNEKGELKVSHKHFEEAFKKVR 265

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score = 44.9 bits (107), Expect = 3e-05
 Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 12/47 (25%)

Query: 203 EHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIA-AMAN 248
            +P  F  L +              G LL GPPG GK T++A A+AN
Sbjct: 31  RNPDQFKALGLV----------TPAGVLLAGPPGCGK-TLLAKAVAN 66

>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 = 45.2 bits (107), Expect = 3e-05
 Identities = 46/182 (25%), Positives = 76/182 (41%), Gaps = 39/182 (21%)

Query: 227 KGYLLYGPPGTGKSTMIAAMA-----NFLNYDVYDLELTTVQDNSE--LRSL--LIDTSS 277
            G LLYGPPGTGKS +  A+A      F +    DL ++     SE  ++ L  +   + 
Sbjct: 85  SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL-VSKWMGESEKLVKQLFAMARENK 143

Query: 278 KSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID 337
            SI+ I+ +D    LTG R                   E E   S++ K   + LL  ++
Sbjct: 144 PSIIFIDQVD---ALTGTRG------------------EGESEASRRIK---TELLVQMN 179

Query: 338 GLWSASGEERIIVFT-TNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSH 396
           G+   +  + ++V   TN   +LD A+ R  R ++ I +      A   + +  +     
Sbjct: 180 GV--GNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPS 235

Query: 397 EL 398
            L
Sbjct: 236 VL 237

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3} Length = 308

 Score = 42.9 bits (101), Expect = 1e-04
 Identities = 19/103 (18%), Positives = 40/103 (38%), Gaps = 22/103 (21%)

Query: 206 ATFDTLAMETKKKEEIKKDLK-----------KGYLLYGPPGTGKSTMIAAMAN------ 248
                + +    + E    +            KG  LYG  G GKS ++AAMA+      
Sbjct: 121 IHLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKK 180

Query: 249 -----FLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDI 286
                 L++  + +++     N  ++  +    +  +L+++DI
Sbjct: 181 GVSTTLLHFPSFAIDVKNAISNGSVKEEIDAVKNVPVLILDDI 223

>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 = 41.6 bits (98), Expect = 1e-04
 Identities = 20/107 (18%), Positives = 35/107 (32%), Gaps = 23/107 (21%)

Query: 202 FEHPATFDTLAMETKKKEEI-----------KKDLKKGYLLYGPPGTGKSTMIAAMANFL 250
           + + A  DT   +   +                +  KG    G PG GK+ +  A    +
Sbjct: 4   YWN-ANLDTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAI 62

Query: 251 ----NYDVY-----DL--ELTTVQDNSELRSLLIDTSSKSILVIEDI 286
                   Y     DL   L  + D  +    L    +  +LV++D+
Sbjct: 63  YEKKGIRGYFFDTKDLIFRLKHLMDEGKDTKFLKTVLNSPVLVLDDL 109

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426} Length = 202

 Score = 41.6 bits (98), Expect = 2e-04
 Identities = 20/103 (19%), Positives = 40/103 (38%), Gaps = 22/103 (21%)

Query: 206 ATFDTLAMETKKKEEIKKDLK------------KGYLLYGPPGTGKSTMIAAMANFL--- 250
           A+   + +    + +  +  +            KG  L+G  G GK+ ++AA+AN L   
Sbjct: 22  ASLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKR 81

Query: 251 NYDVY-----DL--ELTTVQDNSELRSLLIDTSSKSILVIEDI 286
           N         +L  EL     +  +   L       +L+++D+
Sbjct: 82  NVSSLIVYVPELFRELKHSLQDQTMNEKLDYIKKVPVLMLDDL 124

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 21/54 (38%), Positives = 31/54 (57%), Gaps = 2/54 (3%)

Query: 320 GGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHI 373
           GG  + + TL+ +L  +DG      E  I++  TN  D LDPAL+R GR D+ +
Sbjct: 126 GGHDEREQTLNQMLVEMDGF--EGNEGIIVIAATNRPDVLDPALLRPGRFDRQV 177

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 2/54 (3%)

Query: 320 GGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHI 373
           GG+ + + TL+ LL  +DG    +    +++  TN  D LDPAL+R GR D+ I
Sbjct: 154 GGNDEREQTLNQLLVEMDGFEKDTA--IVVMAATNRPDILDPALLRPGRFDRQI 205

>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 Length = 377

 Score = 41.9 bits (98), Expect = 3e-04
 Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 4/62 (6%)

Query: 226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIED 285
           K+ +L  GP  +GK+T+ AA+         ++ L   + N EL         + ++V ED
Sbjct: 169 KRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVA----IDQFLVVFED 224

Query: 286 ID 287
           + 
Sbjct: 225 VK 226

>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 = 41.2 bits (97), Expect = 4e-04
 Identities = 21/54 (38%), Positives = 31/54 (57%), Gaps = 2/54 (3%)

Query: 320 GGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHI 373
           GG+ + + TL+ LL  +DG         +++  TN  D LDPAL+R GR D+ I
Sbjct: 130 GGNDEREQTLNQLLVEMDGF--EKDTAIVVMAATNRPDILDPALLRPGRFDRQI 181

>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 = 41.1 bits (97), Expect = 4e-04
 Identities = 21/55 (38%), Positives = 31/55 (56%), Gaps = 3/55 (5%)

Query: 320 GGSKKSKVTLSGLLNFIDGLWSASGEERIIVF-TTNYVDKLDPALIRRGRMDKHI 373
            G+ + + TL+ LL  +DG    S    +IV   TN  + LDPAL+R GR D+ +
Sbjct: 126 SGNDEREQTLNQLLAEMDGF--GSENAPVIVLAATNRPEILDPALMRPGRFDRQV 178

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	504
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	100.0
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	100.0
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	100.0
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	100.0
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	100.0
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	100.0
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.97
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.97
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.94
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.94
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.93
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.93
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.93
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.92
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.92
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.92
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.91
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.91
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.91
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.9
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.9
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.89
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.89
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.89
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.89
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.88
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.88
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.87
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.81
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.79
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.79
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.74
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.71
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.7
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.69
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.69
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.68
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.66
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.66
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.66
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.65
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.65
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.65
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.63
3pvs_A	447	Replication-associated recombination protein A; ma	99.63
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.62
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.62
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.6
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.58
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.58
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.57
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.57
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.56
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.55
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.55
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.54
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.54
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.54
3bos_A	242	Putative DNA replication factor; P-loop containing	99.54
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.52
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.52
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.51
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.5
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.5
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.5
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.49
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.48
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.48
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.48
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.48
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.48
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.46
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.45
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.45
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.44
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.43
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.4
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.36
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.36
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.35
3co5_A	143	Putative two-component system transcriptional RES	99.33
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.33
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.14
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.11
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	99.04
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.01
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	99.0
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.98
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.97
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.84
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.84
2qgz_A	308	Helicase loader, putative primosome component; str	98.8
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.76
2fna_A	357	Conserved hypothetical protein; structural genomic	98.67
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.64
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.63
3f8t_A	506	Predicted ATPase involved in replication control,	98.59
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.56
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	98.51
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.5
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.48
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.45
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	98.23
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	98.16
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.05
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.73
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.57
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.54
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.53
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.45
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.45
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.43
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.38
1via_A	175	Shikimate kinase; structural genomics, transferase	97.37
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	97.37
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.35
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.33
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.33
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.31
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.3
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.24
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.24
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.24
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.24
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.19
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.18
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.16
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.14
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.13
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.12
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.12
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.1
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.1
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.1
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.09
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.08
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.07
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.07
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.04
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.03
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.02
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.01
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.0
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.99
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.99
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.98
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	96.97
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.96
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	96.95
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.94
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	96.93
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.92
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.89
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.87
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.86
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.86
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.86
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	96.86
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.81
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.81
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.81
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.79
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.78
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.77
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.77
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.77
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.77
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.75
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.75
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	96.74
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.73
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.73
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.7
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.69
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.68
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.67
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.66
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.66
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	96.65
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.63
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.63
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.63
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.63
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.59
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.58
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.58
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.58
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.49
3io5_A	333	Recombination and repair protein; storage dimer, i	96.45
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.44
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.42
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.41
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	96.38
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.33
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	96.33
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.32
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.32
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.31
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.29
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.27
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.25
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.24
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.24
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.21
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.18
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.18
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.18
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.15
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.14
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.13
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.12
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	96.1
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	96.08
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.01
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	95.98
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.97
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.93
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.93
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.92
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.91
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.9
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.85
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.84
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.84
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.83
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.83
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.82
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.81
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.81
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	95.79
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.78
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.76
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.75
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.74
3kw6_A	78	26S protease regulatory subunit 8; structural geno	95.72
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.71
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.71
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	95.69
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.67
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.67
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	95.67
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.66
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.65
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.63
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	95.62
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.61
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.58
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.58
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.58
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.57
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.52
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.51
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.49
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.48
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.47
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.45
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.44
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.42
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.42
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.41
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.4
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	95.4
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.39
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.38
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.37
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.37
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.35
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.32
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.31
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.28
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	95.27
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.25
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.25
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	95.24
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.19
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.19
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.16
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.13
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.11
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	95.1
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.09
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.05
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	95.04
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	94.99
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	94.98
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.94
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	94.94
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	94.93
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	94.93
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.92
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	94.92
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.88
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.86
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	94.84
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	94.81
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	94.81
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.79
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	94.76
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.73
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	94.72
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	94.72
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	94.71
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.7
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	94.69
2fh5_B	214	SR-beta, signal recognition particle receptor beta	94.65
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.65
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	94.65
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	94.65
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	94.64
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	94.64
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	94.62
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	94.6
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.58
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	94.57
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.57
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.55
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	94.54
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.54
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.51
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.48
2krk_A	86	26S protease regulatory subunit 8; structural geno	94.44
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	94.43
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	94.41
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.4
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	94.4
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.4
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.4
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.36
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	94.35
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.35
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	94.31
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	94.29
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.28
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	94.23
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	94.2
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	94.19
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	94.17
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.15
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.14
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.12
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	94.09
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.07
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	94.05
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	94.05
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.04
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.02
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	93.97
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	93.97
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.95
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.93
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	93.91
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.91
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	93.9
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	93.9
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	93.89
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	93.89
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	93.87
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	93.85
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.84
2r6a_A	454	DNAB helicase, replicative helicase; replication,	93.83
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	93.79
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.79
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	93.74
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.73
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.72
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.71
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	93.68
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.67
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	93.67
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	93.6
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	93.6
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	93.59
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.57
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.57
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	93.56
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	93.55
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.51
3llu_A	196	RAS-related GTP-binding protein C; structural geno	93.5
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	93.5
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	93.49
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.46
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.46
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.43
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.4
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	93.38
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	93.38
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	93.38
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	93.37
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.35
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	93.33
1g6h_A	257	High-affinity branched-chain amino acid transport	93.31
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.31
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.3
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.26
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	93.26
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.25
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	93.24
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.24
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	93.23
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	93.22
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.21
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.18
2og2_A	359	Putative signal recognition particle receptor; nuc	93.18
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.14
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.13
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.12
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.12
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.11
3l0o_A	427	Transcription termination factor RHO; helicase, RH	93.1
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.09
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.09
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.08
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.07
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.05
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.02
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	93.01
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.0
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	92.97
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	92.97
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	92.97
2ghi_A	260	Transport protein; multidrug resistance protein, M	92.95
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	92.93
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	92.86
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	92.86
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	92.84
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	92.79
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	92.78
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	92.77
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.76
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	92.72
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	92.7
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	92.7
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	92.69
2xxa_A	433	Signal recognition particle protein; protein trans	92.66
3ice_A	422	Transcription termination factor RHO; transcriptio	92.61
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	92.59
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	92.55
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	92.54
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	92.53
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	92.52
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	92.48
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	92.46
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	92.42
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.39
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	92.37
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	92.3
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	92.3
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	92.29
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	92.27
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	92.27
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.27
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	92.26
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	92.25
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	92.22
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.2
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	92.17
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.14
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.1
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	92.04
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	92.02
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.01
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	91.99
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	91.97
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	91.96
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	91.94
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	91.93
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	91.91
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	91.88
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.85
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	91.83
3b6e_A	216	Interferon-induced helicase C domain-containing P;	91.8
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	91.78
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.78
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	91.78
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	91.69
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	91.67
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	91.66
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	91.64
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	90.93
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	91.63
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	91.62
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	91.57
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	91.52
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	91.42
2hf9_A	226	Probable hydrogenase nickel incorporation protein	91.42
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	91.42
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	91.4
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	91.36
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	91.26
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	91.23
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	91.21
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	91.18
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	91.17
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	91.05
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	91.02
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	91.0
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	90.91
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	90.9
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	90.89

>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=7.3e-38  Score=322.66  Aligned_cols=189  Identities=27%  Similarity=0.415  Sum_probs=148.2

Q ss_pred             eecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC------ChHHHHHHHH
Q 037859          200 VFFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ------DNSELRSLLI  273 (504)
Q Consensus       200 ~~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~------~~~~l~~l~~  273 (504)
                      .|+.||..|..+++.+          |+|+|||||||||||++|+|+|++++.+++.++++.+.      +...++.+|.
T Consensus       166 ~Pl~~pe~f~~~gi~~----------prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~sk~vGese~~vr~lF~  235 (405)
T 4b4t_J          166 LPVKHPELFESLGIAQ----------PKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEGSRMVRELFV  235 (405)
T ss_dssp             HHHHCHHHHHHHTCCC----------CCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGSCSSTTHHHHHHHHHHH
T ss_pred             HHHhCHHHHHhCCCCC----------CCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhhccccchHHHHHHHHHH
Confidence            3555555555555555          89999999999999999999999999999999998763      3466888887


Q ss_pred             hc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEE
Q 037859          274 DT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVF  351 (504)
Q Consensus       274 ~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~  351 (504)
                      .+  ..||||||||||+++.   +|..                  +..+++.....++++||+.|||+.+  ..+++||+
T Consensus       236 ~Ar~~aP~IIFiDEiDai~~---~R~~------------------~~~~~~~~~~~~l~~lL~~lDg~~~--~~~V~vIa  292 (405)
T 4b4t_J          236 MAREHAPSIIFMDEIDSIGS---TRVE------------------GSGGGDSEVQRTMLELLNQLDGFET--SKNIKIIM  292 (405)
T ss_dssp             HHHHTCSEEEEEESSSCCTT---SCSC------------------SSSGGGGHHHHHHHHHHHHHHTTTC--CCCEEEEE
T ss_pred             HHHHhCCceEeeecchhhcc---CCCC------------------CCCCCcHHHHHHHHHHHHhhhccCC--CCCeEEEe
Confidence            76  4799999999999753   2210                  1112234456789999999999965  45699999


Q ss_pred             ecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhhC
Q 037859          352 TTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       352 tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      |||+++.|||||+||||||++|+|++|+.++|..|++.|+.........++..++..+ |||+|||..+|.
T Consensus       293 ATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvdl~~lA~~t~G~SGADi~~l~~  363 (405)
T 4b4t_J          293 ATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCT  363 (405)
T ss_dssp             EESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCCHHHHHHHCCSCCHHHHHHHHH
T ss_pred             ccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHCCCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999999998654322111244455544 999999987654

>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=2.6e-37  Score=319.44  Aligned_cols=193  Identities=25%  Similarity=0.365  Sum_probs=153.7

Q ss_pred             ccccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC-----
Q 037859          206 ATFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-----  263 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~-----  263 (504)
                      .+|+++++-+++|++|.+.+                 |+|||||||||||||++|+|+|++++.+++.++.+.+.     
T Consensus       179 v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~sk~vG  258 (437)
T 4b4t_I          179 ESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLG  258 (437)
T ss_dssp             CCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGCCSSSS
T ss_pred             CcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhhhccCc
Confidence            46777887777777777665                 89999999999999999999999999999999988763     


Q ss_pred             -ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          264 -DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       264 -~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                       +...++.+|..+  ..||||||||||+++.   .|..                  +..+++.....++++||+.|||+.
T Consensus       259 esek~ir~lF~~Ar~~aP~IIfiDEiDai~~---~R~~------------------~~~~~~~~~~~~l~~LL~~lDg~~  317 (437)
T 4b4t_I          259 DGPRLCRQIFKVAGENAPSIVFIDEIDAIGT---KRYD------------------SNSGGEREIQRTMLELLNQLDGFD  317 (437)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEEEEESSSSC---CCSC------------------SSCSSCCHHHHHHHHHHHHHHHCC
T ss_pred             hHHHHHHHHHHHHHhcCCcEEEEehhhhhcc---cCCC------------------CCCCccHHHHHHHHHHHHHhhCcC
Confidence             335678888766  4799999999999753   2210                  112234456778999999999985


Q ss_pred             ccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHh
Q 037859          341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAEN  419 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~  419 (504)
                      +  .++++||+|||+++.|||||+||||||++|+|++|+.++|+.|++.|+.........+++.++..+ |||+|||..+
T Consensus       318 ~--~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l  395 (437)
T 4b4t_I          318 D--RGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAM  395 (437)
T ss_dssp             C--SSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCCHHHHHHHCCSCCHHHHHHH
T ss_pred             C--CCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHHHH
Confidence            4  466999999999999999999999999999999999999999999998654322111234445544 9999999876


Q ss_pred             hC
Q 037859          420 LM  421 (504)
Q Consensus       420 l~  421 (504)
                      +.
T Consensus       396 ~~  397 (437)
T 4b4t_I          396 CT  397 (437)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.1e-36  Score=318.37  Aligned_cols=192  Identities=24%  Similarity=0.328  Sum_probs=149.0

Q ss_pred             cccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC------
Q 037859          207 TFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ------  263 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~------  263 (504)
                      +|+++++-+++|+.|.+.+                 |+|+|||||||||||++|+|+|++++.+++.++++.+.      
T Consensus       179 ~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~sk~~Ge  258 (437)
T 4b4t_L          179 TFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGE  258 (437)
T ss_dssp             CSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCCSSSSH
T ss_pred             ChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhccccchH
Confidence            4555555555555555444                 89999999999999999999999999999999998763      


Q ss_pred             ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          264 DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       264 ~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                      +...++.+|..+  ..||||||||||+++.   +|..                  .+...+.....++++||+.|||+.+
T Consensus       259 se~~ir~~F~~A~~~~P~IifiDEiDai~~---~R~~------------------~~~~~~~~~~~~l~~lL~~lDg~~~  317 (437)
T 4b4t_L          259 SARIIREMFAYAKEHEPCIIFMDEVDAIGG---RRFS------------------EGTSADREIQRTLMELLTQMDGFDN  317 (437)
T ss_dssp             HHHHHHHHHHHHHHSCSEEEEEECCCSSSC---CCSS------------------SCCSSTTHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHHHHHHHHHHhcCCceeeeeccccccc---cccc------------------CCCCcchHHHHHHHHHHHHhhcccC
Confidence            235677888766  4799999999999753   2210                  1122334456789999999999965


Q ss_pred             cCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhh
Q 037859          342 ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENL  420 (504)
Q Consensus       342 ~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l  420 (504)
                        .++++||+|||+++.|||||+||||||.+|+|++|+.++|..|++.|+.........++..++..+ |||+|||..++
T Consensus       318 --~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~dl~~lA~~t~G~sGADi~~l~  395 (437)
T 4b4t_L          318 --LGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCA  395 (437)
T ss_dssp             --TTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCCHHHHHHTCCSCCHHHHHHHH
T ss_pred             --CCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccCHHHHHHhCCCCCHHHHHHHH
Confidence              456999999999999999999999999999999999999999999998643221111234445544 99999998765


Q ss_pred             C
Q 037859          421 M  421 (504)
Q Consensus       421 ~  421 (504)
                      .
T Consensus       396 ~  396 (437)
T 4b4t_L          396 T  396 (437)
T ss_dssp             H
T ss_pred             H
Confidence            4

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=4e-36  Score=313.93  Aligned_cols=195  Identities=26%  Similarity=0.364  Sum_probs=153.5

Q ss_pred             CCccccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC---
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ---  263 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~---  263 (504)
                      .+.+|+++++.+++|++|.+.+                 |+|||||||||||||++|+|+|++++.+++.++++.+.   
T Consensus       176 p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~~~~  255 (434)
T 4b4t_M          176 PTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMY  255 (434)
T ss_dssp             CSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCSSC
T ss_pred             CCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhhhcc
Confidence            3456888888888888777765                 89999999999999999999999999999999998763   


Q ss_pred             ---ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          264 ---DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       264 ---~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                         +...++.+|..+  ..||||||||||+++.   +|..                  +..++......++++||+.|||
T Consensus       256 vGese~~ir~lF~~A~~~aP~IifiDEiDal~~---~R~~------------------~~~~~~~~~~~~~~~lL~~ldg  314 (434)
T 4b4t_M          256 IGEGAKLVRDAFALAKEKAPTIIFIDELDAIGT---KRFD------------------SEKSGDREVQRTMLELLNQLDG  314 (434)
T ss_dssp             SSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHC---CCSS------------------GGGGTTHHHHHHHHHHHHHHTT
T ss_pred             cchHHHHHHHHHHHHHhcCCeEEeecchhhhhh---ccCC------------------CCCCCchHHHHHHHHHHHHhhc
Confidence               335678888765  4799999999999863   2210                  1122334456789999999999


Q ss_pred             ccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHH
Q 037859          339 LWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVA  417 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~  417 (504)
                      +.+  .++++||+|||+++.|||||+||||||.+|+|++|+.++|..|++.|+..........+..++..+ |||+|||.
T Consensus       315 ~~~--~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t~G~sGADi~  392 (434)
T 4b4t_M          315 FSS--DDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARSTDEFNGAQLK  392 (434)
T ss_dssp             SCS--SCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCCHHHHHHHCSSCCHHHHH
T ss_pred             cCC--CCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHH
Confidence            965  456999999999999999999999999999999999999999999987543221111233445444 99999998


Q ss_pred             HhhC
Q 037859          418 ENLM  421 (504)
Q Consensus       418 ~~l~  421 (504)
                      .+|.
T Consensus       393 ~l~~  396 (434)
T 4b4t_M          393 AVTV  396 (434)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>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=1.6e-35  Score=309.12  Aligned_cols=192  Identities=26%  Similarity=0.394  Sum_probs=152.7

Q ss_pred             ccccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC-----
Q 037859          206 ATFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-----  263 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~-----  263 (504)
                      .+|+++++-+++|+.|.+.+                 |||+|||||||||||++|+|+|++++.+++.++++.+.     
T Consensus       169 v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~~~~~G  248 (428)
T 4b4t_K          169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLG  248 (428)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTCCSSCS
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhhccccc
Confidence            45777777777777777665                 89999999999999999999999999999999998763     


Q ss_pred             -ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          264 -DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       264 -~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                       +...++.+|..+  ..||||||||||+++.   .|..                  ...+++.....++++||+.|||+.
T Consensus       249 e~e~~ir~lF~~A~~~aP~IifiDEiD~i~~---~R~~------------------~~~~~~~~~~r~l~~lL~~ldg~~  307 (428)
T 4b4t_K          249 EGPRMVRDVFRLARENAPSIIFIDEVDSIAT---KRFD------------------AQTGSDREVQRILIELLTQMDGFD  307 (428)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEEECTHHHHC---SCSS------------------SCSCCCCHHHHHHHHHHHHHHHSC
T ss_pred             hhHHHHHHHHHHHHHcCCCeeechhhhhhhc---cccC------------------CCCCCChHHHHHHHHHHHHhhCCC
Confidence             346688888776  4799999999999863   2210                  112234456779999999999996


Q ss_pred             ccCCCceEEEEecCCCCCCChhhhcCCCceeEEEec-CCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHH
Q 037859          341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMS-YCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAE  418 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~-~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~  418 (504)
                      +.  .+++||+|||+++.|||||+||||||++|+|+ +|+.++|..|++.++.........+++.++..+ |||+|||..
T Consensus       308 ~~--~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~dl~~lA~~t~G~sgadi~~  385 (428)
T 4b4t_K          308 QS--TNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAA  385 (428)
T ss_dssp             SS--CSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCCHHHHHHHTTTCCHHHHHH
T ss_pred             CC--CCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHHCCCCCHHHHHH
Confidence            54  55999999999999999999999999999996 899999999999998543221111234455544 999999986


Q ss_pred             hh
Q 037859          419 NL  420 (504)
Q Consensus       419 ~l  420 (504)
                      +|
T Consensus       386 l~  387 (428)
T 4b4t_K          386 IM  387 (428)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>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=3.6e-35  Score=306.14  Aligned_cols=194  Identities=26%  Similarity=0.330  Sum_probs=154.8

Q ss_pred             CccccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC----
Q 037859          205 PATFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ----  263 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~----  263 (504)
                      ..+|+++++-+++|++|.+.+                 |||+|||||||||||++|+|+|++++.+++.++++.+.    
T Consensus       205 ~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~sk~v  284 (467)
T 4b4t_H          205 DVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYV  284 (467)
T ss_dssp             SCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCCCSS
T ss_pred             CCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhcccC
Confidence            356888888888888887765                 89999999999999999999999999999999998763    


Q ss_pred             --ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          264 --DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       264 --~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                        +...++.+|..+  ..||||||||||+++.   +|..                  .+.+.......+++.||+.|||+
T Consensus       285 Gesek~ir~lF~~Ar~~aP~IIfiDEiDai~~---~R~~------------------~~~~~~~~~~~~l~~lL~~lDg~  343 (467)
T 4b4t_H          285 GEGARMVRELFEMARTKKACIIFFDEIDAVGG---ARFD------------------DGAGGDNEVQRTMLELITQLDGF  343 (467)
T ss_dssp             SHHHHHHHHHHHHHHHTCSEEEEEECCTTTSB---CCSS------------------SSCGGGGHHHHHHHHHHHHHHSS
T ss_pred             CHHHHHHHHHHHHHHhcCCceEeecccccccc---cccC------------------cCCCccHHHHHHHHHHHHHhhcc
Confidence              345678888776  4799999999999753   2210                  01122344567899999999998


Q ss_pred             cccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHH
Q 037859          340 WSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAE  418 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~  418 (504)
                      .+  .++++||+|||+++.|||||+||||||++|+|++|+.++|..|++.|+..........++.++..+ |||+|||..
T Consensus       344 ~~--~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~  421 (467)
T 4b4t_H          344 DP--RGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRS  421 (467)
T ss_dssp             CC--TTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHHCCSCCHHHHHH
T ss_pred             CC--CCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHHCCCCCHHHHHH
Confidence            54  466999999999999999999999999999999999999999999998654322111233444444 999999987


Q ss_pred             hhC
Q 037859          419 NLM  421 (504)
Q Consensus       419 ~l~  421 (504)
                      +|.
T Consensus       422 l~~  424 (467)
T 4b4t_H          422 VCT  424 (467)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            643

>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=99.97  E-value=2.2e-32  Score=304.36  Aligned_cols=188  Identities=24%  Similarity=0.375  Sum_probs=128.5

Q ss_pred             ecCCCccccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------CChHHHHHHHHh
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------QDNSELRSLLID  274 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------~~~~~l~~l~~~  274 (504)
                      |+.||..|..+...+          ++|+|||||||||||++|+|+|++++.+++.++.+.+      .+...++.+|..
T Consensus       496 p~~~p~~f~~~g~~~----------~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~vGese~~vr~lF~~  565 (806)
T 3cf2_A          496 PVEHPDKFLKFGMTP----------SKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDK  565 (806)
T ss_dssp             TTTCSGGGSSSCCCC----------CSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTTCSSCHHHHHHHHHH
T ss_pred             hhhCHHHHHhcCCCC----------CceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhccccchHHHHHHHHHHH
Confidence            444555555444444          8999999999999999999999999999999987764      366789999988


Q ss_pred             cc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEe
Q 037859          275 TS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFT  352 (504)
Q Consensus       275 ~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~t  352 (504)
                      +.  .||||||||||+++..++..                     ...++....+++++||++|||+.+  ..+++||+|
T Consensus       566 Ar~~~P~IifiDEiDsl~~~R~~~---------------------~~~~~~~~~rv~~~lL~~mdg~~~--~~~V~vi~a  622 (806)
T 3cf2_A          566 ARQAAPCVLFFDELDSIAKARGGN---------------------IGDGGGAADRVINQILTEMDGMST--KKNVFIIGA  622 (806)
T ss_dssp             HHTTCSEEEECSCGGGCC-----------------------------------CHHHHHHHHHHHSSCS--SSSEEEECC
T ss_pred             HHHcCCceeechhhhHHhhccCCC---------------------CCCCchHHHHHHHHHHHHHhCCCC--CCCEEEEEe
Confidence            74  69999999999986322211                     112234456789999999999965  456999999


Q ss_pred             cCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhhC
Q 037859          353 TNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       353 TN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      ||+++.|||||+||||||.+|+|++|+.++|..|++.++.........++..+++.+ |||+|||..+|.
T Consensus       623 TN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~~~~dl~~la~~t~g~SGadi~~l~~  692 (806)
T 3cf2_A          623 TNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQ  692 (806)
T ss_dssp             -CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--CCC----------------CHHHHHH
T ss_pred             CCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCCHHHHHHHHH
Confidence            999999999999999999999999999999999999998765433333466677765 999999987654

>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=99.97  E-value=2.1e-30  Score=288.50  Aligned_cols=190  Identities=26%  Similarity=0.349  Sum_probs=153.0

Q ss_pred             ccccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC-----
Q 037859          206 ATFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-----  263 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~-----  263 (504)
                      .+|+++++-++.|++|.+.+                 |+|+|||||||||||+||+++|++++.+++.+++..+.     
T Consensus       201 v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~~g  280 (806)
T 3cf2_A          201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAG  280 (806)
T ss_dssp             CCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSCTT
T ss_pred             CChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcccch
Confidence            45777777777777766654                 89999999999999999999999999999999987652     


Q ss_pred             -ChHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          264 -DNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       264 -~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                       +...++.+|..+.  .||||||||||+++.   +|.                     ...+.....++++||..|||+.
T Consensus       281 ese~~lr~lF~~A~~~~PsIIfIDEiDal~~---~r~---------------------~~~~~~~~riv~~LL~~mdg~~  336 (806)
T 3cf2_A          281 ESESNLRKAFEEAEKNAPAIIFIDELDAIAP---KRE---------------------KTHGEVERRIVSQLLTLMDGLK  336 (806)
T ss_dssp             HHHHHHHHHHHHHTTSCSEEEEEESGGGTCC---TTT---------------------TCCCTTHHHHHHHHHTHHHHCC
T ss_pred             HHHHHHHHHHHHHHHcCCeEEEEehhccccc---ccC---------------------CCCChHHHHHHHHHHHHHhccc
Confidence             3467889998774  699999999999863   221                     1223445678999999999996


Q ss_pred             ccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHh
Q 037859          341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAEN  419 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~  419 (504)
                      +.  ..++||+|||+++.|||||+||||||.+|+|+.|+.++|.+|++.++..........+..++..+ ||+++||..+
T Consensus       337 ~~--~~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvdl~~lA~~T~GfsgaDL~~L  414 (806)
T 3cf2_A          337 QR--AHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAAL  414 (806)
T ss_dssp             GG--GCEEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCCHHHHHHHCCSCCHHHHHHH
T ss_pred             cc--CCEEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHhcCCCCHHHHHHH
Confidence            53  45999999999999999999999999999999999999999999998654332222344555544 9999999865


Q ss_pred             hC
Q 037859          420 LM  421 (504)
Q Consensus       420 l~  421 (504)
                      +.
T Consensus       415 v~  416 (806)
T 3cf2_A          415 CS  416 (806)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.94  E-value=4.3e-26  Score=226.07  Aligned_cols=189  Identities=22%  Similarity=0.300  Sum_probs=138.6

Q ss_pred             cccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC-----
Q 037859          207 TFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD-----  264 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~-----  264 (504)
                      +|+++++.++.|+.|.+.+                 ++|+||+||||||||+|++++|+.++.+++.++...+..     
T Consensus         8 ~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~~~~~~   87 (274)
T 2x8a_A            8 TWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGE   87 (274)
T ss_dssp             ----CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCSSTTHH
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHhhhhhH
Confidence            4666676666776665543                 789999999999999999999999999999998876632     


Q ss_pred             -hHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          265 -NSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       265 -~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                       ...++.+|..+  ..|+|+|+||||.++..   +..                     .........++.++..|||...
T Consensus        88 ~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~---r~~---------------------~~~~~~~~~~~~~l~~Lsgg~~  143 (274)
T 2x8a_A           88 SERAVRQVFQRAKNSAPCVIFFDEVDALCPR---RSD---------------------RETGASVRVVNQLLTEMDGLEA  143 (274)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------------------------------CTTHHHHHHHHHHTCCS
T ss_pred             HHHHHHHHHHHHHhcCCCeEeeehhhhhhcc---cCC---------------------CcchHHHHHHHHHHHhhhcccc
Confidence             23567777764  47899999999986521   110                     0001123467899999999843


Q ss_pred             cCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCC------cchHHHHhcCccCCCCCHHH
Q 037859          342 ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDS------HELYAVIESMPAETNMTPAD  415 (504)
Q Consensus       342 ~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~------~~~~~~i~~l~~~~~~s~a~  415 (504)
                        +..++++++||+++.||||++||||||.+|++++|+.++|..|++.++....      ......+.......|||+||
T Consensus       144 --~~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~~~~~~g~sgad  221 (274)
T 2x8a_A          144 --RQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGAD  221 (274)
T ss_dssp             --TTCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHTCSGGGSCCHHH
T ss_pred             --cCCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHHhhccCCcCHHH
Confidence              4558899999999999999999999999999999999999999999985321      12233333333334999999


Q ss_pred             HHHhhC
Q 037859          416 VAENLM  421 (504)
Q Consensus       416 i~~~l~  421 (504)
                      |..++.
T Consensus       222 l~~l~~  227 (274)
T 2x8a_A          222 LSALVR  227 (274)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            987644

>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=99.94  E-value=2.7e-26  Score=230.45  Aligned_cols=192  Identities=22%  Similarity=0.360  Sum_probs=146.1

Q ss_pred             CccccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc-----
Q 037859          205 PATFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV-----  262 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~-----  262 (504)
                      +.+|+++++.+..|+.+.+.+                 ++|+|||||||||||++|+++|++++.+++.+++..+     
T Consensus        11 ~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~~~~   90 (301)
T 3cf0_A           11 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWF   90 (301)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHHHHH
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHhhhc
Confidence            446788888888887777654                 5789999999999999999999999999999987764     


Q ss_pred             -CChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          263 -QDNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       263 -~~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                       .....++.+|..+  ..|+||||||||.+....+..                     ...........++.||..|||+
T Consensus        91 g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~---------------------~~~~~~~~~~~~~~lL~~l~~~  149 (301)
T 3cf0_A           91 GESEANVREIFDKARQAAPCVLFFDELDSIAKARGGN---------------------IGDGGGAADRVINQILTEMDGM  149 (301)
T ss_dssp             TTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTT---------------------TCCSSCSCCHHHHHHHHHHHSS
T ss_pred             CchHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCC---------------------cCCcchHHHHHHHHHHHHhhcc
Confidence             2345577777765  368999999999975321110                     0011223345788999999998


Q ss_pred             cccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCc---chHHHHhcCccCCCCCHHHH
Q 037859          340 WSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSH---ELYAVIESMPAETNMTPADV  416 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~---~~~~~i~~l~~~~~~s~a~i  416 (504)
                      ..  ..+++||+|||+++.||++++|||||+..|+++.|+.++|..|++.++.....   .....+...  ..+++++||
T Consensus       150 ~~--~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~~~~la~~--~~g~sg~dl  225 (301)
T 3cf0_A          150 ST--KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKM--TNGFSGADL  225 (301)
T ss_dssp             CT--TSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHT--CSSCCHHHH
T ss_pred             cC--CCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccchHHHHHHH--cCCCCHHHH
Confidence            53  45689999999999999999999999999999999999999999999864322   122223221  348999998


Q ss_pred             HHhhC
Q 037859          417 AENLM  421 (504)
Q Consensus       417 ~~~l~  421 (504)
                      ..++.
T Consensus       226 ~~l~~  230 (301)
T 3cf0_A          226 TEICQ  230 (301)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            86543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.93  E-value=3.1e-25  Score=224.97  Aligned_cols=190  Identities=23%  Similarity=0.299  Sum_probs=149.4

Q ss_pred             CccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhc-CCcEEEEeccccC----
Q 037859          205 PATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFL-NYDVYDLELTTVQ----  263 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~~~~~~----  263 (504)
                      +.+|+++++.++.|+.|.+.+                ++|+|||||||||||++|+++|+++ +.+++.++++.+.    
T Consensus         8 ~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~~~~   87 (322)
T 1xwi_A            8 NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWL   87 (322)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCCSSC
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHhhhh
Confidence            345778888888887777654                4789999999999999999999999 8899999987652    


Q ss_pred             --ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          264 --DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       264 --~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                        ....++.+|..+  ..|+||||||||.++.   .+.                     ..........+++||..+||+
T Consensus        88 g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~---~~~---------------------~~~~~~~~~~~~~ll~~ld~~  143 (322)
T 1xwi_A           88 GESEKLVKNLFQLARENKPSIIFIDEIDSLCG---SRS---------------------ENESEAARRIKTEFLVQMQGV  143 (322)
T ss_dssp             CSCHHHHHHHHHHHHHTSSEEEEEETTTGGGC---CSS---------------------SCCTTHHHHHHHHHHHHHHCS
T ss_pred             hHHHHHHHHHHHHHHhcCCcEEEeecHHHhcc---ccc---------------------cccchHHHHHHHHHHHHHhcc
Confidence              345677777655  4789999999999752   211                     112233556889999999998


Q ss_pred             cccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcc-hHHHHhcCccCC-CCCHHHHH
Q 037859          340 WSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHE-LYAVIESMPAET-NMTPADVA  417 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~-~~~~i~~l~~~~-~~s~a~i~  417 (504)
                      .. ...+++||+|||+++.||++|+|  ||+..|+++.|+.++|..|++.++...... ....+..++..+ |+|++||.
T Consensus       144 ~~-~~~~v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~  220 (322)
T 1xwi_A          144 GV-DNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADIS  220 (322)
T ss_dssp             SS-CCTTEEEEEEESCTTTSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTCTTCCHHHHH
T ss_pred             cc-cCCCEEEEEecCCcccCCHHHHh--hcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHH
Confidence            53 24568999999999999999999  999999999999999999999998654433 233456666655 99999998


Q ss_pred             HhhC
Q 037859          418 ENLM  421 (504)
Q Consensus       418 ~~l~  421 (504)
                      .++.
T Consensus       221 ~l~~  224 (322)
T 1xwi_A          221 IIVR  224 (322)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>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=99.93  E-value=9.2e-26  Score=239.07  Aligned_cols=194  Identities=28%  Similarity=0.362  Sum_probs=148.7

Q ss_pred             CccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC-----
Q 037859          205 PATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-----  263 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~-----  263 (504)
                      ..+|+++++.++.|+++.+.+                ++|+||+||||||||++|+++|++++.+++.++++.+.     
T Consensus        12 ~~~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~~g   91 (476)
T 2ce7_A           12 RVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVG   91 (476)
T ss_dssp             CCCGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCCTT
T ss_pred             CCCHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHHhc
Confidence            346899999998887776543                68999999999999999999999999999999988753     


Q ss_pred             -ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          264 -DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       264 -~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                       +...++.+|..+  ..||||||||||.+..   .+..                  +..++......+++.||+.|||+.
T Consensus        92 ~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~---~r~~------------------~~~g~~~~~~~~l~~LL~~ld~~~  150 (476)
T 2ce7_A           92 VGAARVRDLFAQAKAHAPCIVFIDEIDAVGR---HRGA------------------GLGGGHDEREQTLNQLLVEMDGFD  150 (476)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEEETGGGTCC---C---------------------------CHHHHHHHHHHHHHHHSC
T ss_pred             ccHHHHHHHHHHHHhcCCCEEEEechhhhhh---hccc------------------ccCcCcHHHHHHHHHHHHHHhccC
Confidence             235677788766  3799999999999742   1110                  011233445678999999999885


Q ss_pred             ccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccC-CCCCHHHHHHh
Q 037859          341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAE-TNMTPADVAEN  419 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~a~i~~~  419 (504)
                      .  ..+++||+|||+++.|||+++||||||..|.++.|+.++|..|++.++..........+..++.. .|++++||..+
T Consensus       151 ~--~~~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~l~~la~~t~G~sgadL~~l  228 (476)
T 2ce7_A          151 S--KEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENL  228 (476)
T ss_dssp             G--GGTEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHH
T ss_pred             C--CCCEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhhHHHHHHhcCCCcHHHHHHH
Confidence            4  35699999999999999999999999999999999999999999998864322111112334444 49999999877


Q ss_pred             hC
Q 037859          420 LM  421 (504)
Q Consensus       420 l~  421 (504)
                      +.
T Consensus       229 v~  230 (476)
T 2ce7_A          229 VN  230 (476)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.93  E-value=6.8e-25  Score=214.72  Aligned_cols=196  Identities=26%  Similarity=0.351  Sum_probs=147.7

Q ss_pred             CCCccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC---
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ---  263 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~---  263 (504)
                      ..+.+|+++++.+..|+.+.+.+                ++|+|||||||||||++++++|+.++.+++.+++..+.   
T Consensus         6 ~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~~~   85 (257)
T 1lv7_A            6 QIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMF   85 (257)
T ss_dssp             SSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSC
T ss_pred             CCCCCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHHHh
Confidence            44667999999999888776543                67899999999999999999999999999999887652   


Q ss_pred             ---ChHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          264 ---DNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       264 ---~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                         ....++.+|..+.  .++|+||||||.+....+..                     ..++.......++.+|..+|+
T Consensus        86 ~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~---------------------~~~~~~~~~~~~~~ll~~l~~  144 (257)
T 1lv7_A           86 VGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAG---------------------LGGGHDEREQTLNQMLVEMDG  144 (257)
T ss_dssp             CCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTT---------------------SCCTTCHHHHHHHHHHHHHHT
T ss_pred             hhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCC---------------------cCCCchHHHHHHHHHHHHhhC
Confidence               3456777777653  57999999999974211100                     011223345678999999999


Q ss_pred             ccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccC-CCCCHHHHH
Q 037859          339 LWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAE-TNMTPADVA  417 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~a~i~  417 (504)
                      +..  ...+++|+|||+++.+|++++|||||+..++++.|+.++|..|++.++..........+..++.. .|++++||.
T Consensus       145 ~~~--~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~~~~~la~~~~G~~~~dl~  222 (257)
T 1lv7_A          145 FEG--NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLA  222 (257)
T ss_dssp             CCS--SSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHH
T ss_pred             ccc--CCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCccccHHHHHHHcCCCCHHHHH
Confidence            853  45689999999999999999999999999999999999999999998754321110111222333 488999998


Q ss_pred             HhhC
Q 037859          418 ENLM  421 (504)
Q Consensus       418 ~~l~  421 (504)
                      ..+.
T Consensus       223 ~l~~  226 (257)
T 1lv7_A          223 NLVN  226 (257)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>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=99.92  E-value=3.5e-25  Score=216.53  Aligned_cols=194  Identities=24%  Similarity=0.337  Sum_probs=140.0

Q ss_pred             ccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC------
Q 037859          206 ATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ------  263 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~------  263 (504)
                      .+|+++++.+..|+.+.+.+                ++++|||||||||||++|+++|++++.+++.+++..+.      
T Consensus         3 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   82 (262)
T 2qz4_A            3 VSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGL   82 (262)
T ss_dssp             CCTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSSTTH
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhccCh
Confidence            46888888888888776543                57899999999999999999999999999999988753      


Q ss_pred             ChHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          264 DNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       264 ~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                      ....++.+|..+.  .++||||||||.+..   .+...                 ............+..+|+.+++...
T Consensus        83 ~~~~~~~~~~~a~~~~~~vl~iDeid~l~~---~~~~~-----------------~~~~~~~~~~~~l~~ll~~~~~~~~  142 (262)
T 2qz4_A           83 GAARVRSLFKEARARAPCIVYIDEIDAVGK---KRSTT-----------------MSGFSNTEEEQTLNQLLVEMDGMGT  142 (262)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEECC---------------------------------------CHHHHHHHHHHHTCCT
T ss_pred             hHHHHHHHHHHHHhcCCeEEEEeCcchhhc---ccccc-----------------ccCccchhHHHHHHHHHHHhhCcCC
Confidence            2245666776553  589999999999752   11100                 0001122344578899999998743


Q ss_pred             cCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHH--HHhcCccC-CCCCHHHHHH
Q 037859          342 ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYA--VIESMPAE-TNMTPADVAE  418 (504)
Q Consensus       342 ~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~--~i~~l~~~-~~~s~a~i~~  418 (504)
                        ...+++|+|||+++.||++++|||||+..++++.|+.++|..|++.++.........  ....++.. .|+++++|..
T Consensus       143 --~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~  220 (262)
T 2qz4_A          143 --TDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIAN  220 (262)
T ss_dssp             --TCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHH
T ss_pred             --CCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHH
Confidence              456899999999999999999999999999999999999999999988543322211  12344444 4899999987


Q ss_pred             hhC
Q 037859          419 NLM  421 (504)
Q Consensus       419 ~l~  421 (504)
                      ++.
T Consensus       221 l~~  223 (262)
T 2qz4_A          221 ICN  223 (262)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            653

>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=99.92  E-value=6.5e-25  Score=222.41  Aligned_cols=191  Identities=23%  Similarity=0.321  Sum_probs=150.6

Q ss_pred             CCCccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC---
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ---  263 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~---  263 (504)
                      ..+.+|+++++.+..|+.|.+.+                ++|+|||||||||||++|+++|++++.+++.++++.+.   
T Consensus        12 ~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~   91 (322)
T 3eie_A           12 KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKW   91 (322)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHTTT
T ss_pred             CCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhhcc
Confidence            34567899999999999998877                57899999999999999999999999999999987642   


Q ss_pred             ---ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          264 ---DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       264 ---~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                         ....++.+|..+  ..|+||||||||.+..   .+.                     .+.........+.||..+|+
T Consensus        92 ~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~---~~~---------------------~~~~~~~~~~~~~ll~~l~~  147 (322)
T 3eie_A           92 MGESEKLVKQLFAMARENKPSIIFIDQVDALTG---TRG---------------------EGESEASRRIKTELLVQMNG  147 (322)
T ss_dssp             GGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSC---C---------------------------CCTHHHHHHHHHHHGG
T ss_pred             cchHHHHHHHHHHHHHhcCCeEEEechhhhhhc---cCC---------------------CCcchHHHHHHHHHHHHhcc
Confidence               234466676654  4689999999999753   111                     11223356678999999999


Q ss_pred             ccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcc-hHHHHhcCccCC-CCCHHHH
Q 037859          339 LWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHE-LYAVIESMPAET-NMTPADV  416 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~-~~~~i~~l~~~~-~~s~a~i  416 (504)
                      +.. ....++||+|||+++.||++|+|  ||+..|+++.|+.++|..|++.++...... ....+..++..+ |+++++|
T Consensus       148 ~~~-~~~~v~vi~atn~~~~ld~al~~--Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di  224 (322)
T 3eie_A          148 VGN-DSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDI  224 (322)
T ss_dssp             GGT-SCCCEEEEEEESCGGGSCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHH
T ss_pred             ccc-cCCceEEEEecCChhhCCHHHHc--ccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHH
Confidence            853 24568999999999999999999  999999999999999999999998765433 233456666655 8999999


Q ss_pred             HHhh
Q 037859          417 AENL  420 (504)
Q Consensus       417 ~~~l  420 (504)
                      ..++
T Consensus       225 ~~l~  228 (322)
T 3eie_A          225 AVVV  228 (322)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8664

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.92  E-value=3.7e-25  Score=219.51  Aligned_cols=197  Identities=25%  Similarity=0.310  Sum_probs=148.5

Q ss_pred             cCCCccccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD  264 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  264 (504)
                      ..++.+|+++++.+..++.|.+.+                 ++++|||||||||||++|+++|+.++.+++.+++..+..
T Consensus        10 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~   89 (285)
T 3h4m_A           10 ERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVK   89 (285)
T ss_dssp             SSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCC
T ss_pred             CCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHH
Confidence            344567899999999998887766                 578999999999999999999999999999999877531


Q ss_pred             ------hHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhh
Q 037859          265 ------NSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI  336 (504)
Q Consensus       265 ------~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~l  336 (504)
                            ...+..+|..+  ..|+||||||||.++.   ++..                  ...++.......+..+++.+
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~---~~~~------------------~~~~~~~~~~~~l~~ll~~~  148 (285)
T 3h4m_A           90 KFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAA---KRTD------------------ALTGGDREVQRTLMQLLAEM  148 (285)
T ss_dssp             CSTTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHB---CCSS------------------SCCGGGGHHHHHHHHHHHHH
T ss_pred             hccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcc---cCcc------------------ccCCccHHHHHHHHHHHHHh
Confidence                  23455666544  4689999999999753   1110                  00112233456788899999


Q ss_pred             cCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccC-CCCCHHH
Q 037859          337 DGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAE-TNMTPAD  415 (504)
Q Consensus       337 Dg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~a~  415 (504)
                      +++..  ..+++||+|||.++.+|++++|||||+..+.++.|+.+++..|++.++..........+..++.. .|+++++
T Consensus       149 ~~~~~--~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~  226 (285)
T 3h4m_A          149 DGFDA--RGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAE  226 (285)
T ss_dssp             HTTCS--SSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHHCTTCCHHH
T ss_pred             hCCCC--CCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCCHHHHHHHcCCCCHHH
Confidence            88743  45689999999999999999999999999999999999999999998764332211112333333 4889999


Q ss_pred             HHHhhC
Q 037859          416 VAENLM  421 (504)
Q Consensus       416 i~~~l~  421 (504)
                      |..++.
T Consensus       227 i~~l~~  232 (285)
T 3h4m_A          227 LKAICT  232 (285)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            886543

>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=99.91  E-value=2.5e-24  Score=221.17  Aligned_cols=189  Identities=23%  Similarity=0.330  Sum_probs=145.7

Q ss_pred             CccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------
Q 037859          205 PATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------  262 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------  262 (504)
                      +.+|+++++.+..|+.|.+.+                ++|+|||||||||||++|+++|++++.+++.+++..+      
T Consensus        47 ~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~~~g  126 (355)
T 2qp9_X           47 NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMG  126 (355)
T ss_dssp             CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSCC--
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhhhcc
Confidence            456778888888888777665                4689999999999999999999999999999988764      


Q ss_pred             CChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          263 QDNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       263 ~~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                      .....++.+|..+  ..++||||||||.+..   .+.                     .+........++.||..||++.
T Consensus       127 ~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~---~r~---------------------~~~~~~~~~~~~~ll~~l~~~~  182 (355)
T 2qp9_X          127 ESEKLVKQLFAMARENKPSIIFIDQVDALTG---TRG---------------------EGESEASRRIKTELLVQMNGVG  182 (355)
T ss_dssp             -CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------------------------------CTHHHHHHHHHHHHHHHCC
T ss_pred             hHHHHHHHHHHHHHHcCCeEEEEechHhhcc---cCC---------------------CCcchHHHHHHHHHHHHhhccc
Confidence            1345567777655  3789999999999742   211                     1122345667889999999875


Q ss_pred             ccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcc-hHHHHhcCccCC-CCCHHHHHH
Q 037859          341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHE-LYAVIESMPAET-NMTPADVAE  418 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~-~~~~i~~l~~~~-~~s~a~i~~  418 (504)
                      .. ...++||+|||+++.||++++|  ||+..|+++.|+.++|..|++.++...... ....+..++..+ |+++++|..
T Consensus       183 ~~-~~~v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~  259 (355)
T 2qp9_X          183 ND-SQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAV  259 (355)
T ss_dssp             ----CCEEEEEEESCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHH
T ss_pred             cc-CCCeEEEeecCCcccCCHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHH
Confidence            32 3568999999999999999999  999999999999999999999998755432 233455566544 899999986


Q ss_pred             hh
Q 037859          419 NL  420 (504)
Q Consensus       419 ~l  420 (504)
                      ++
T Consensus       260 l~  261 (355)
T 2qp9_X          260 VV  261 (355)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.91  E-value=8.1e-24  Score=225.42  Aligned_cols=195  Identities=26%  Similarity=0.348  Sum_probs=148.1

Q ss_pred             CCccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC---
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD---  264 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~---  264 (504)
                      .+.+|+++++.++.|+.+.+.+                ++|+||+||||||||+|+++||++++.+++.+++..+..   
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            4567899999988887766543                678999999999999999999999999999999877532   


Q ss_pred             ---hHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          265 ---NSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       265 ---~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                         ...++.+|..+.  .|+|+||||||.+....+..                     ..++......+++.||..|||.
T Consensus       106 g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~---------------------~~~~~~e~~~~l~~LL~~Ldg~  164 (499)
T 2dhr_A          106 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSG---------------------VGGGNDEREQTLNQLLVEMDGF  164 (499)
T ss_dssp             THHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSS---------------------TTTSSHHHHHHHHHHHHHGGGC
T ss_pred             hhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccC---------------------cCCCcHHHHHHHHHHHHHhccc
Confidence               245677787764  58999999999864211100                     0112233456889999999998


Q ss_pred             cccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHH
Q 037859          340 WSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAE  418 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~  418 (504)
                      ..  +..+++|++||+++.|||+|+||||||.+|.++.|+.++|..|++.++..........+..++..+ |++++||..
T Consensus       165 ~~--~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv~l~~lA~~t~G~~gadL~~  242 (499)
T 2dhr_A          165 EK--DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLEN  242 (499)
T ss_dssp             CS--SCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSSTTHHHHTTSCSCCHHHHHH
T ss_pred             cc--CccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHHHHHHHHHhcCCCCHHHHHH
Confidence            53  455899999999999999999999999999999999999999999887532211111122334434 999999987


Q ss_pred             hhC
Q 037859          419 NLM  421 (504)
Q Consensus       419 ~l~  421 (504)
                      ++.
T Consensus       243 lv~  245 (499)
T 2dhr_A          243 LLN  245 (499)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            754

>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=99.91  E-value=1.1e-23  Score=222.77  Aligned_cols=190  Identities=23%  Similarity=0.302  Sum_probs=147.1

Q ss_pred             CCccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhc-CCcEEEEeccccC---
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFL-NYDVYDLELTTVQ---  263 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~~~~~~---  263 (504)
                      .+.+|+++++.+..|+.|.+.+                ++|+|||||||||||++|+++|+++ +.+++.++++.+.   
T Consensus       129 ~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~~~~  208 (444)
T 2zan_A          129 PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKW  208 (444)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC------
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHHhhh
Confidence            3456888888888888887654                4789999999999999999999999 8899999887652   


Q ss_pred             ---ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          264 ---DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       264 ---~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                         ....++.+|..+  ..|+||||||||.++.   .+.                     ..........++.||..|||
T Consensus       209 ~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~---~~~---------------------~~~~~~~~~~~~~lL~~l~~  264 (444)
T 2zan_A          209 LGESEKLVKNLFQLARENKPSIIFIDEIDSLCG---SRS---------------------ENESEAARRIKTEFLVQMQG  264 (444)
T ss_dssp             ---CCCTHHHHHHHHHHSCSEEEEESCTTTTCC---CSS---------------------CCCCGGGHHHHHHHHTTTTC
T ss_pred             cchHHHHHHHHHHHHHHcCCeEEEEechHhhcc---CCC---------------------CccccHHHHHHHHHHHHHhC
Confidence               223466666554  4789999999999752   211                     11223456788999999999


Q ss_pred             ccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcc-hHHHHhcCccCC-CCCHHHH
Q 037859          339 LWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHE-LYAVIESMPAET-NMTPADV  416 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~-~~~~i~~l~~~~-~~s~a~i  416 (504)
                      +.. ...+++||+|||+++.|||+|+|  ||+..|+++.|+.++|..|++.++...... ....+..++..+ |+|++||
T Consensus       265 ~~~-~~~~v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl  341 (444)
T 2zan_A          265 VGV-DNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADI  341 (444)
T ss_dssp             SSC-CCSSCEEEEEESCGGGSCHHHHT--TCCEEEECCCCCHHHHHHHHHHHHTTSCEECCHHHHHHHHHHTTTCCHHHH
T ss_pred             ccc-CCCCEEEEecCCCccccCHHHHh--hcceEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHH
Confidence            753 24568999999999999999999  999999999999999999999998654432 223455566544 9999999


Q ss_pred             HHhh
Q 037859          417 AENL  420 (504)
Q Consensus       417 ~~~l  420 (504)
                      ..++
T Consensus       342 ~~l~  345 (444)
T 2zan_A          342 SIIV  345 (444)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8654

>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=99.90  E-value=1.5e-24  Score=213.35  Aligned_cols=195  Identities=27%  Similarity=0.364  Sum_probs=140.2

Q ss_pred             CccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC-----
Q 037859          205 PATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-----  263 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~-----  263 (504)
                      +..|+++++.+..++.+.+.+                ++|+|||||||||||++|+++|++++.+++.+++..+.     
T Consensus         7 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~   86 (268)
T 2r62_A            7 NVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVG   86 (268)
T ss_dssp             CCCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTSCSS
T ss_pred             CCCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHhhcc
Confidence            446888888888887776654                57899999999999999999999999999998877642     


Q ss_pred             -ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          264 -DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       264 -~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                       ....++.+|..+  ..++||||||+|.+..   .+...                 +...........++.||+.+|+..
T Consensus        87 ~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~---~~~~~-----------------~~~~~~~~~~~~~~~ll~~l~~~~  146 (268)
T 2r62_A           87 LGASRVRDLFETAKKQAPSIIFIDEIDAIGK---SRAAG-----------------GVVSGNDEREQTLNQLLAEMDGFG  146 (268)
T ss_dssp             SCSSSSSTTHHHHHHSCSCEEEESCGGGTTC------------------------------CCCSCSSTTTTTTTTTCSS
T ss_pred             hHHHHHHHHHHHHHhcCCeEEEEeChhhhcc---ccccc-----------------ccCCCchhHHHHHHHHHHHhhCcc
Confidence             122334444443  3689999999999742   11000                 000111223346788999999874


Q ss_pred             ccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHh
Q 037859          341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAEN  419 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~  419 (504)
                      + ....++||+|||.++.||++++|||||+..|+++.|+.++|..+++.++..........+..++..+ |+++++|..+
T Consensus       147 ~-~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~~g~dl~~l  225 (268)
T 2r62_A          147 S-ENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANI  225 (268)
T ss_dssp             C-SCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSCCTTTTTSSSCSSCHHHHHHH
T ss_pred             c-CCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCccCHHHHHHHcCCCCHHHHHHH
Confidence            3 2345899999999999999999999999999999999999999999988643221111234444444 7889888765


Q ss_pred             h
Q 037859          420 L  420 (504)
Q Consensus       420 l  420 (504)
                      +
T Consensus       226 ~  226 (268)
T 2r62_A          226 I  226 (268)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.90  E-value=1.2e-23  Score=224.43  Aligned_cols=192  Identities=25%  Similarity=0.342  Sum_probs=150.1

Q ss_pred             CCccccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC---
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ---  263 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~---  263 (504)
                      .+..|+.+++....++.|.+.+                 ++|+|||||||||||++|+++|++++.+++.+++..+.   
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            3457899999999998887766                 47899999999999999999999999999999987652   


Q ss_pred             ---ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          264 ---DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       264 ---~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                         ....++.+|..+  ..|+||||||||.+..   .+.                     ..........++.||..||+
T Consensus       279 ~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~---~~~---------------------~~~~~~~~~~~~~LL~~ld~  334 (489)
T 3hu3_A          279 AGESESNLRKAFEEAEKNAPAIIFIDELDAIAP---KRE---------------------KTHGEVERRIVSQLLTLMDG  334 (489)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCB---CTT---------------------SCCCHHHHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHhcCCcEEEecchhhhcc---ccc---------------------cccchHHHHHHHHHHHHhhc
Confidence               224567777665  3689999999999752   111                     11233456788999999998


Q ss_pred             ccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccC-CCCCHHHHH
Q 037859          339 LWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAE-TNMTPADVA  417 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~a~i~  417 (504)
                      ...  ...++||+|||+++.||+++.|||||+..|+++.|+.++|..|++.++..........+..++.. .++++++|.
T Consensus       335 ~~~--~~~v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~l~~la~~t~g~s~~dL~  412 (489)
T 3hu3_A          335 LKQ--RAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLA  412 (489)
T ss_dssp             SCT--TSCEEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCCHHHHHHTCTTCCHHHHH
T ss_pred             ccc--CCceEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHccCCcHHHHH
Confidence            743  45689999999999999999999999999999999999999999998864322211122333433 499999998


Q ss_pred             HhhC
Q 037859          418 ENLM  421 (504)
Q Consensus       418 ~~l~  421 (504)
                      .++.
T Consensus       413 ~L~~  416 (489)
T 3hu3_A          413 ALCS  416 (489)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6643

>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=99.89  E-value=5.1e-23  Score=201.01  Aligned_cols=195  Identities=26%  Similarity=0.343  Sum_probs=140.7

Q ss_pred             CCccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC----
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ----  263 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~----  263 (504)
                      .+.+|+++++.++.++++.+..                ++|++|+||||||||+|++++|+.++.+++.++...+.    
T Consensus        11 ~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~~~~   90 (254)
T 1ixz_A           11 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV   90 (254)
T ss_dssp             CSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCT
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHHHHh
Confidence            3457899999888877665433                67899999999999999999999999999888765431    


Q ss_pred             --ChHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          264 --DNSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       264 --~~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                        ....+..+|....  .+++++|||||.+....+..                     ...........++.+++.++|.
T Consensus        91 ~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~---------------------~~~~~~~~~~~~~~ll~~l~g~  149 (254)
T 1ixz_A           91 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSG---------------------VGGGNDEREQTLNQLLVEMDGF  149 (254)
T ss_dssp             THHHHHHHHHHHHHTTSSSEEEEEETHHHHHC------------------------------CHHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCcc---------------------ccccchHHHHHHHHHHHHHhCC
Confidence              1234667777653  58999999999864211100                     0011223456788999999987


Q ss_pred             cccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHH
Q 037859          340 WSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAE  418 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~  418 (504)
                      ..  +..++++++||+++.|||+++||||||.+|+++.|+.++|..|++.+...........+..++..+ |++++||..
T Consensus       150 ~~--~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~  227 (254)
T 1ixz_A          150 EK--DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLEN  227 (254)
T ss_dssp             CT--TCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHH
T ss_pred             CC--CCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHH
Confidence            43  345788899999999999999999999999999999999999999886432211111122333333 888888876


Q ss_pred             hhC
Q 037859          419 NLM  421 (504)
Q Consensus       419 ~l~  421 (504)
                      .+.
T Consensus       228 ~~~  230 (254)
T 1ixz_A          228 LLN  230 (254)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.89  E-value=7.7e-23  Score=212.49  Aligned_cols=195  Identities=25%  Similarity=0.344  Sum_probs=149.4

Q ss_pred             ecCCCccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC-
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-  263 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~-  263 (504)
                      ...+|..|+++++.+..++.|.+.+                ++++|||||||||||++|+++|++++.+++.+++..+. 
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            3446778999999999999998877                47899999999999999999999999999999998763 


Q ss_pred             -----ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhh
Q 037859          264 -----DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI  336 (504)
Q Consensus       264 -----~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~l  336 (504)
                           ....++.+|..+  ..++||||||||.++.   .+.                     .+........+..||..+
T Consensus       187 ~~~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~---~~~---------------------~~~~~~~~~~~~~ll~~l  242 (389)
T 3vfd_A          187 KYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLC---ERR---------------------EGEHDASRRLKTEFLIEF  242 (389)
T ss_dssp             -----CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------------------------------CTHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHhcCCeEEEEECchhhcc---cCC---------------------CccchHHHHHHHHHHHHh
Confidence                 234456666554  4689999999999752   111                     112233566788999999


Q ss_pred             cCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcch-HHHHhcCccCC-CCCHH
Q 037859          337 DGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHEL-YAVIESMPAET-NMTPA  414 (504)
Q Consensus       337 Dg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~-~~~i~~l~~~~-~~s~a  414 (504)
                      +|........++||+|||+++.||++++|  ||+.+|+++.|+.+++..|++.++......+ ...+..++... |++++
T Consensus       243 ~~~~~~~~~~v~vI~atn~~~~l~~~l~~--R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~~g~~~~  320 (389)
T 3vfd_A          243 DGVQSAGDDRVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGS  320 (389)
T ss_dssp             HHHC-----CEEEEEEESCGGGCCHHHHT--TCCEEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHTTTCCHH
T ss_pred             hcccccCCCCEEEEEecCCchhcCHHHHc--CcceEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHH
Confidence            98865545678999999999999999999  9999999999999999999999886543332 23445555544 89999


Q ss_pred             HHHHhhC
Q 037859          415 DVAENLM  421 (504)
Q Consensus       415 ~i~~~l~  421 (504)
                      +|..++.
T Consensus       321 ~l~~L~~  327 (389)
T 3vfd_A          321 DLTALAK  327 (389)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9977643

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.89  E-value=1.1e-23  Score=210.63  Aligned_cols=143  Identities=17%  Similarity=0.158  Sum_probs=106.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC------ChHHHHHHHHhc------cCCeEEEEeccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ------DNSELRSLLIDT------SSKSILVIEDIDCSLDLT  293 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~------~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~  293 (504)
                      |+|+|||||||||||++|+++|++++.+++.++++.+.      ....++.+|..+      ..||||||||||.++.  
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~~~~--  113 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAG--  113 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCEEEECCC------
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEEEEechhhhcC--
Confidence            78999999999999999999999999999999987652      224566777655      2789999999999753  


Q ss_pred             ccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc---------cCCCceEEEEecCCCCCCChhhh
Q 037859          294 GQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS---------ASGEERIIVFTTNYVDKLDPALI  364 (504)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~---------~~~~~~ivI~tTN~~e~Ld~ALl  364 (504)
                       ++.                   +...+........+.||+.||+...         ....+++||+|||+++.||+||+
T Consensus       114 -~~~-------------------~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~  173 (293)
T 3t15_A          114 -RMG-------------------GTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLI  173 (293)
T ss_dssp             ------------------------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHH
T ss_pred             -CCC-------------------CCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHh
Confidence             110                   0011222345677899999986531         12346899999999999999999


Q ss_pred             cCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          365 RRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       365 RpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ||||||.+|+  .|+.++|..|++.++.
T Consensus       174 R~~R~d~~i~--~P~~~~r~~Il~~~~~  199 (293)
T 3t15_A          174 RDGRMEKFYW--APTREDRIGVCTGIFR  199 (293)
T ss_dssp             HHHHEEEEEE--CCCHHHHHHHHHHHHG
T ss_pred             CCCCCceeEe--CcCHHHHHHHHHHhcc
Confidence            9999999887  5799999999998875

>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=99.89  E-value=1.3e-22  Score=208.61  Aligned_cols=191  Identities=25%  Similarity=0.367  Sum_probs=144.7

Q ss_pred             CccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC----
Q 037859          205 PATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD----  264 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~----  264 (504)
                      |.+|+++++.+..++.|.+.+                ++++|||||||||||++|+++|++++.+++.++++.+..    
T Consensus        80 ~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g  159 (357)
T 3d8b_A           80 PVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVG  159 (357)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCSSTT
T ss_pred             CCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhccccc
Confidence            556788888888888877665                578999999999999999999999999999999987632    


Q ss_pred             --hHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          265 --NSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       265 --~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                        ...++.+|..+  ..++||||||||.++.   .+.                     .+........++.||..++|..
T Consensus       160 ~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~---~~~---------------------~~~~~~~~~~~~~lL~~l~~~~  215 (357)
T 3d8b_A          160 EGEKMVRALFAVARCQQPAVIFIDEIDSLLS---QRG---------------------DGEHESSRRIKTEFLVQLDGAT  215 (357)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEEETHHHHTB---C---------------------------CHHHHHHHHHHHHHHC--
T ss_pred             hHHHHHHHHHHHHHhcCCeEEEEeCchhhhc---cCC---------------------CCcchHHHHHHHHHHHHHhccc
Confidence              23455666544  4689999999999752   110                     1123345667889999999876


Q ss_pred             ccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcch-HHHHhcCccCC-CCCHHHHHH
Q 037859          341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHEL-YAVIESMPAET-NMTPADVAE  418 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~-~~~i~~l~~~~-~~s~a~i~~  418 (504)
                      ......++||+|||.++.||++++|  ||+..++++.|+.+++..+++.++....... ...+..++..+ |+++++|..
T Consensus       216 ~~~~~~v~vI~atn~~~~l~~~l~~--Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~t~G~s~~dl~~  293 (357)
T 3d8b_A          216 TSSEDRILVVGATNRPQEIDEAARR--RLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQ  293 (357)
T ss_dssp             --CCCCEEEEEEESCGGGBCHHHHT--TCCEEEECCCCCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHHTTTCCHHHHHH
T ss_pred             ccCCCCEEEEEecCChhhCCHHHHh--hCceEEEeCCcCHHHHHHHHHHHHhhcCCCccHHHHHHHHHHcCCCCHHHHHH
Confidence            5445678999999999999999999  9999999999999999999998875433222 23445555544 899999987


Q ss_pred             hhC
Q 037859          419 NLM  421 (504)
Q Consensus       419 ~l~  421 (504)
                      ++.
T Consensus       294 l~~  296 (357)
T 3d8b_A          294 LCR  296 (357)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            644

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.88  E-value=2.6e-22  Score=200.31  Aligned_cols=192  Identities=21%  Similarity=0.332  Sum_probs=142.6

Q ss_pred             CCccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC----
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ----  263 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~----  263 (504)
                      .+.+|+++++.+..++.+.+.+                ++++||+||||||||++|+++|++++.+++.++++.+.    
T Consensus        16 ~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~~~   95 (297)
T 3b9p_A           16 AKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYV   95 (297)
T ss_dssp             SCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSSSC
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhccc
Confidence            3567888999999988887765                47899999999999999999999999999999988753    


Q ss_pred             -C-hHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          264 -D-NSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       264 -~-~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                       . ...++.+|..+  ..|+||||||+|.++.....                        ..........+.||..+|+.
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~------------------------~~~~~~~~~~~~ll~~l~~~  151 (297)
T 3b9p_A           96 GDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSS------------------------SEHEASRRLKTEFLVEFDGL  151 (297)
T ss_dssp             SCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----------------------------CCSHHHHHHHHHHHHHC
T ss_pred             chHHHHHHHHHHHHHHcCCcEEEeccHHHhcccccc------------------------CcchHHHHHHHHHHHHHhcc
Confidence             1 23455555443  47899999999997531110                        01122345678899999987


Q ss_pred             ccc-CCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcch-HHHHhcCccC-CCCCHHHH
Q 037859          340 WSA-SGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHEL-YAVIESMPAE-TNMTPADV  416 (504)
Q Consensus       340 ~~~-~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~-~~~i~~l~~~-~~~s~a~i  416 (504)
                      ... .+..++||+|||+++.||++++|  ||+..++++.|+.+++..|++.++....... ...+..++.. .|+++++|
T Consensus       152 ~~~~~~~~v~vi~~tn~~~~l~~~l~~--R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~~~g~~~~~l  229 (297)
T 3b9p_A          152 PGNPDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDL  229 (297)
T ss_dssp             C------CEEEEEEESCGGGBCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHHTTTCCHHHH
T ss_pred             cccCCCCcEEEEeecCChhhCCHHHHh--hCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHH
Confidence            532 22458899999999999999999  9999999999999999999998875433222 2234444443 48999998


Q ss_pred             HHhhC
Q 037859          417 AENLM  421 (504)
Q Consensus       417 ~~~l~  421 (504)
                      ..++.
T Consensus       230 ~~l~~  234 (297)
T 3b9p_A          230 TALAK  234 (297)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76543

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.87  E-value=5.2e-22  Score=196.69  Aligned_cols=195  Identities=26%  Similarity=0.338  Sum_probs=140.2

Q ss_pred             CCccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC----
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ----  263 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~----  263 (504)
                      .+.+|+++++.++.++++.+..                ++|++|+||||||||+|+++||+.++.+++.++...+.    
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~~~  114 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV  114 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSTT
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHHHh
Confidence            4567899999988877665433                67899999999999999999999999999988865431    


Q ss_pred             --ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          264 --DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       264 --~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                        ....+..+|...  ..++++++||||.+....+..                     ...........+..+++.++|.
T Consensus       115 ~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~---------------------~~~~~~~~~~~~~~ll~~lsgg  173 (278)
T 1iy2_A          115 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSG---------------------VGGGNDEREQTLNQLLVEMDGF  173 (278)
T ss_dssp             THHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC-----------------------------CHHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccc---------------------cCCcchHHHHHHHHHHHHHhCC
Confidence              123456677665  358999999999864211100                     0011223355778899999987


Q ss_pred             cccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccC-CCCCHHHHHH
Q 037859          340 WSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAE-TNMTPADVAE  418 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~a~i~~  418 (504)
                      ..  +..++++++||+++.|||+++|||||+.+|+++.|+.++|..|++.++..........+..++.. .|++++||..
T Consensus       174 ~~--~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~  251 (278)
T 1iy2_A          174 EK--DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLEN  251 (278)
T ss_dssp             CT--TCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHH
T ss_pred             CC--CCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcccCHHHHHHHcCCCCHHHHHH
Confidence            43  34478889999999999999999999999999999999999999988753221111112223333 3888888875


Q ss_pred             hhC
Q 037859          419 NLM  421 (504)
Q Consensus       419 ~l~  421 (504)
                      ++.
T Consensus       252 l~~  254 (278)
T 1iy2_A          252 LLN  254 (278)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.79  E-value=1.5e-18  Score=176.17  Aligned_cols=155  Identities=15%  Similarity=0.193  Sum_probs=128.9

Q ss_pred             cCCCccccccccChhHHHHHHHhh---------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHH
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDL---------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLL  272 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l---------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~  272 (504)
                      -..|.+|+++++.+..++.+...+         ..++||+||||||||++|+++|+.++.+++.+++..+.....+...+
T Consensus        22 ~~~p~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~~~~~~~~~~  101 (338)
T 3pfi_A           22 SLRPSNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEKSGDLAAIL  101 (338)
T ss_dssp             -CCCCSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCCSHHHHHHHH
T ss_pred             ccCCCCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhccchhHHHHHH
Confidence            346789999999999999888877         24799999999999999999999999999999999888888888999


Q ss_pred             HhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc-----------
Q 037859          273 IDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS-----------  341 (504)
Q Consensus       273 ~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~-----------  341 (504)
                      .....+++|||||||.+.                                   ......|+..++...-           
T Consensus       102 ~~~~~~~vl~lDEi~~l~-----------------------------------~~~~~~Ll~~l~~~~~~~~~~~~~~~~  146 (338)
T 3pfi_A          102 TNLSEGDILFIDEIHRLS-----------------------------------PAIEEVLYPAMEDYRLDIIIGSGPAAQ  146 (338)
T ss_dssp             HTCCTTCEEEEETGGGCC-----------------------------------HHHHHHHHHHHHTSCC---------CC
T ss_pred             HhccCCCEEEEechhhcC-----------------------------------HHHHHHHHHHHHhccchhhcccCcccc
Confidence            888899999999999862                                   2244555665553210           


Q ss_pred             ---cCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          342 ---ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       342 ---~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                         .....+++|+|||+...++++|++  ||+.++.|+.|+.+++..+++.++..
T Consensus       147 ~~~~~~~~~~~i~atn~~~~l~~~L~~--R~~~~i~l~~~~~~e~~~il~~~~~~  199 (338)
T 3pfi_A          147 TIKIDLPKFTLIGATTRAGMLSNPLRD--RFGMQFRLEFYKDSELALILQKAALK  199 (338)
T ss_dssp             CCCCCCCCCEEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             ceecCCCCeEEEEeCCCccccCHHHHh--hcCEEeeCCCcCHHHHHHHHHHHHHh
Confidence               001137899999999999999999  99999999999999999999988753

>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=99.79  E-value=4e-21  Score=203.71  Aligned_cols=202  Identities=12%  Similarity=0.052  Sum_probs=118.0

Q ss_pred             ccccccccChhHHHHHHHhh---------cccccccCCCCCcHHHHHHHHHHhcC--CcEEEEeccccC-----ChHHHH
Q 037859          206 ATFDTLAMETKKKEEIKKDL---------KKGYLLYGPPGTGKSTMIAAMANFLN--YDVYDLELTTVQ-----DNSELR  269 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l---------~rg~LL~GPpGtGKTsla~aiA~~l~--~~i~~l~~~~~~-----~~~~l~  269 (504)
                      ..|+.+++.++.|+.+...+         ++|+|||||||||||++|+++|++++  .+++.++++.+.     ....++
T Consensus        34 ~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  113 (456)
T 2c9o_A           34 QAASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLM  113 (456)
T ss_dssp             SEETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGCCSSSCHHHHHH
T ss_pred             hchhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHHHHhhhhhHHHH
Confidence            45899999999988655444         57899999999999999999999999  899999988753     234578


Q ss_pred             HHHHhc-----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCC
Q 037859          270 SLLIDT-----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG  344 (504)
Q Consensus       270 ~l~~~~-----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~  344 (504)
                      ..|..+     ..||||||||||+++...+.......    ........- .-............+.++..++......+
T Consensus       114 ~~f~~a~~~~~~~~~il~iDEid~l~~~r~~~~~~~~----~~~~~~~~~-~l~~~~~~~~~~~~~~ll~~l~~~~~~~~  188 (456)
T 2c9o_A          114 ENFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGY----GKTISHVII-GLKTAKGTKQLKLDPSIFESLQKERVEAG  188 (456)
T ss_dssp             HHHHHTEEEEEEEEEEEEEEEEEEEEEC------------------CEEE-EEEETTEEEEEEECHHHHHHHHHTTCCTT
T ss_pred             HHHHHHHhhhhcCCcEEEEechhhcccccCCCCCCCc----chHHHHHHH-HHhccccchhHhhhHHHHHHHhhccCCCC
Confidence            888776     47899999999998632211100000    000000000 00000000111223345555542111233


Q ss_pred             CceEEEEecCCCCCCChhhhcCCCcee--EEEecCCC--HHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHh
Q 037859          345 EERIIVFTTNYVDKLDPALIRRGRMDK--HIEMSYCC--FEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAEN  419 (504)
Q Consensus       345 ~~~ivI~tTN~~e~Ld~ALlRpGR~d~--~I~~~~p~--~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~  419 (504)
                      ..++|++|||+++.+|+|+.||||||.  .+.++.|+  .++|+.|++.+..       .+++.++..+ |  ++||..+
T Consensus       189 ~~v~i~attn~~~~ld~a~~r~~rfd~~~~~~v~~p~~~~~~R~~il~~~~~-------~dl~~~a~~t~g--gadl~~l  259 (456)
T 2c9o_A          189 DVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVHKKKEIIQDVTL-------HDLDVANARPQG--GQDILSM  259 (456)
T ss_dssp             EEEEEETTTCCEEEEEEETTSCCTTSCSSSSEECCCCSCSEEEEEEEEEEEH-------HHHHHTC--------------
T ss_pred             CEEEEEcCCCCcccCChhhcCCcccCcceeEecCCCchhHHHHHHHHHHHHH-------HHHHHHHHhCCC--hhHHHHH
Confidence            445556899999999999999999998  56667774  4666666554431       2345555544 5  8888876


Q ss_pred             hC
Q 037859          420 LM  421 (504)
Q Consensus       420 l~  421 (504)
                      +.
T Consensus       260 ~~  261 (456)
T 2c9o_A          260 MG  261 (456)
T ss_dssp             --
T ss_pred             Hh
Confidence            63

>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=99.74  E-value=1.1e-17  Score=168.38  Aligned_cols=180  Identities=16%  Similarity=0.191  Sum_probs=134.6

Q ss_pred             CCCccccccccChhHHHHHHHhh---------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHH
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL---------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLI  273 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l---------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~  273 (504)
                      .+|.+|+++++.+..++.+...+         ++++||+||||||||++|+++|+.++.+++.+++..+....++...+.
T Consensus         6 ~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~l~~~l~   85 (324)
T 1hqc_A            6 LRPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAILA   85 (324)
T ss_dssp             CCCCSTTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCSHHHHHHHHT
T ss_pred             cCcccHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCChHHHHHHHH
Confidence            35778999999998888877766         267999999999999999999999999999999998887788888887


Q ss_pred             h-ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc-----cc-----
Q 037859          274 D-TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW-----SA-----  342 (504)
Q Consensus       274 ~-~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~-----~~-----  342 (504)
                      . ...+++|||||||.+.                                   ......|+..++...     +.     
T Consensus        86 ~~~~~~~~l~lDEi~~l~-----------------------------------~~~~~~L~~~l~~~~~~~v~~~~~~~~  130 (324)
T 1hqc_A           86 NSLEEGDILFIDEIHRLS-----------------------------------RQAEEHLYPAMEDFVMDIVIGQGPAAR  130 (324)
T ss_dssp             TTCCTTCEEEETTTTSCC-----------------------------------HHHHHHHHHHHHHSEEEECCSSSSSCC
T ss_pred             HhccCCCEEEEECCcccc-----------------------------------cchHHHHHHHHHhhhhHHhcccccccc
Confidence            7 6788999999999862                                   112344444444221     00     


Q ss_pred             ----CCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchH-HHHhcCccCCCCCHHHHH
Q 037859          343 ----SGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELY-AVIESMPAETNMTPADVA  417 (504)
Q Consensus       343 ----~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~-~~i~~l~~~~~~s~a~i~  417 (504)
                          ....+++|+|||..+.++++|.+  ||+.++.++.|+.+++..+++.++........ +.++.++...+-.+.++.
T Consensus       131 ~~~~~~~~~~~i~~t~~~~~~~~~l~~--R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~  208 (324)
T 1hqc_A          131 TIRLELPRFTLIGATTRPGLITAPLLS--RFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAK  208 (324)
T ss_dssp             CEEEECCCCEEEEEESCCSSCSCSTTT--TCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCSCHHHHH
T ss_pred             ccccCCCCEEEEEeCCCcccCCHHHHh--cccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccCCHHHHH
Confidence                01246899999999999999999  99889999999999999999988743322221 223333333344566655


Q ss_pred             Hh
Q 037859          418 EN  419 (504)
Q Consensus       418 ~~  419 (504)
                      +.
T Consensus       209 ~~  210 (324)
T 1hqc_A          209 RL  210 (324)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>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=99.71  E-value=2.1e-18  Score=180.43  Aligned_cols=145  Identities=18%  Similarity=0.190  Sum_probs=58.9

Q ss_pred             ccccChhHHHHHHHhh------------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC--------
Q 037859          210 TLAMETKKKEEIKKDL------------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ--------  263 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l------------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~--------  263 (504)
                      .++++++.|+.+...+                  ++++||+||||||||++|+++|+.++.+++.++++.+.        
T Consensus        16 ~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~~g~vG~d   95 (444)
T 1g41_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   95 (444)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCCC
T ss_pred             HhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcccceeecc
Confidence            4677777777775544                  47899999999999999999999999999999986542        


Q ss_pred             ChHHHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccC
Q 037859          264 DNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS  343 (504)
Q Consensus       264 ~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~  343 (504)
                      ....++.+|..+..  ++++||+|.+.+                           .........+++.||+.|||+.+..
T Consensus        96 ~e~~lr~lf~~a~~--~~~~De~d~~~~---------------------------~~~~~~e~rvl~~LL~~~dg~~~~~  146 (444)
T 1g41_A           96 VDSIIRDLTDSAMK--LVRQQEIAKNRA---------------------------RAEDVAEERILDALLPPAKNQWGEV  146 (444)
T ss_dssp             THHHHHHHHHHHHH--HHHHHHHHSCC-----------------------------------------------------
T ss_pred             HHHHHHHHHHHHHh--cchhhhhhhhhc---------------------------cchhhHHHHHHHHHHHHhhcccccc
Confidence            23456666655422  345788877421                           1112234678999999999996532


Q ss_pred             CCceEEEEe-cCCCCCCChhhhcCCCceeEEEecCCCHH-HHHHHH
Q 037859          344 GEERIIVFT-TNYVDKLDPALIRRGRMDKHIEMSYCCFE-AFKVLA  387 (504)
Q Consensus       344 ~~~~ivI~t-TN~~e~Ld~ALlRpGR~d~~I~~~~p~~e-~~~~i~  387 (504)
                         .+ +++ ||+++.|||||+||||||++|+++.|+.. .+..|+
T Consensus       147 ---~v-~a~~TN~~~~ld~aL~rggr~D~~i~i~lP~~~~~~~ei~  188 (444)
T 1g41_A          147 ---EN-HDSHSSTRQAFRKKLREGQLDDKEIEIDVSAGVSMGVEIM  188 (444)
T ss_dssp             ----------------------------------------------
T ss_pred             ---cc-ccccccCHHHHHHHHHcCCCcceEEEEcCCCCccchhhhh
Confidence               23 454 99999999999999999999999999887 455543

>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=99.70  E-value=5.2e-17  Score=163.89  Aligned_cols=148  Identities=23%  Similarity=0.227  Sum_probs=116.9

Q ss_pred             cCCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhc-
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDT-  275 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~-  275 (504)
                      -..|.+|++++++++.++.+...+     +..||++||||||||++++++|+.++.+++.++++... ...++..+... 
T Consensus        19 k~rP~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~~-~~~i~~~~~~~~   97 (324)
T 3u61_B           19 KYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCK-IDFVRGPLTNFA   97 (324)
T ss_dssp             HSCCCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTTCC-HHHHHTHHHHHH
T ss_pred             hhCCCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcccccC-HHHHHHHHHHHH
Confidence            346889999999999999888887     45689999999999999999999999999999987754 45555544331 


Q ss_pred             ---c---CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEE
Q 037859          276 ---S---SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERII  349 (504)
Q Consensus       276 ---~---~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~iv  349 (504)
                         +   .+.||||||+|.+.                                  .......|+..++...    ..+.+
T Consensus        98 ~~~~~~~~~~vliiDEi~~l~----------------------------------~~~~~~~L~~~le~~~----~~~~i  139 (324)
T 3u61_B           98 SAASFDGRQKVIVIDEFDRSG----------------------------------LAESQRHLRSFMEAYS----SNCSI  139 (324)
T ss_dssp             HBCCCSSCEEEEEEESCCCGG----------------------------------GHHHHHHHHHHHHHHG----GGCEE
T ss_pred             hhcccCCCCeEEEEECCcccC----------------------------------cHHHHHHHHHHHHhCC----CCcEE
Confidence               2   67999999999862                                  0124456666666432    34688


Q ss_pred             EEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          350 VFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       350 I~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      |+|||.+..++++|.+  |+. .+.|+.|+.+++..|++.++
T Consensus       140 I~~~n~~~~l~~~l~s--R~~-~i~~~~~~~~e~~~il~~~~  178 (324)
T 3u61_B          140 IITANNIDGIIKPLQS--RCR-VITFGQPTDEDKIEMMKQMI  178 (324)
T ss_dssp             EEEESSGGGSCTTHHH--HSE-EEECCCCCHHHHHHHHHHHH
T ss_pred             EEEeCCccccCHHHHh--hCc-EEEeCCCCHHHHHHHHHHHH
Confidence            9999999999999999  994 79999999998777665543

>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=99.69  E-value=2e-16  Score=148.74  Aligned_cols=148  Identities=18%  Similarity=0.246  Sum_probs=114.8

Q ss_pred             CCCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccccCChHHHHHHHH
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDNSELRSLLI  273 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~~~l~~l~~  273 (504)
                      ..|..|+.+++.+..++.+...+    ..++||+||||||||++++++++.+     ...++.+++........+...+.
T Consensus        11 ~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (226)
T 2chg_A           11 YRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIK   90 (226)
T ss_dssp             TSCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHH
T ss_pred             cCCCCHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHH
Confidence            46788999999999999988888    2349999999999999999999876     45678888776655555544433


Q ss_pred             h--------ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCC
Q 037859          274 D--------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGE  345 (504)
Q Consensus       274 ~--------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~  345 (504)
                      .        ...+.||+|||+|.+.                                   ......|+..++..    ..
T Consensus        91 ~~~~~~~~~~~~~~vliiDe~~~l~-----------------------------------~~~~~~l~~~l~~~----~~  131 (226)
T 2chg_A           91 EFARTAPIGGAPFKIIFLDEADALT-----------------------------------ADAQAALRRTMEMY----SK  131 (226)
T ss_dssp             HHHTSCCSTTCSCEEEEEETGGGSC-----------------------------------HHHHHHHHHHHHHT----TT
T ss_pred             HHhcccCCCccCceEEEEeChhhcC-----------------------------------HHHHHHHHHHHHhc----CC
Confidence            2        1468999999999862                                   11344555555542    24


Q ss_pred             ceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          346 ERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       346 ~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ..++|+|||.++.+++++.+  |+. .+.++.++.++...++..++.
T Consensus       132 ~~~~i~~~~~~~~~~~~l~~--r~~-~i~~~~~~~~~~~~~l~~~~~  175 (226)
T 2chg_A          132 SCRFILSCNYVSRIIEPIQS--RCA-VFRFKPVPKEAMKKRLLEICE  175 (226)
T ss_dssp             TEEEEEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCChhhcCHHHHH--hCc-eeecCCCCHHHHHHHHHHHHH
Confidence            57889999999999999999  997 899999999999999887763

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.69  E-value=6.4e-17  Score=161.77  Aligned_cols=151  Identities=18%  Similarity=0.251  Sum_probs=114.5

Q ss_pred             ccccChhHHHHHHHhh-------------------cccccccCCCCCcHHHHHHHHHHhcC-------CcEEEEeccccC
Q 037859          210 TLAMETKKKEEIKKDL-------------------KKGYLLYGPPGTGKSTMIAAMANFLN-------YDVYDLELTTVQ  263 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l-------------------~rg~LL~GPpGtGKTsla~aiA~~l~-------~~i~~l~~~~~~  263 (504)
                      .+++.+..|+.|.+.+                   +.++|||||||||||++|+++|+.++       .+++.+++..+.
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            5778888888777554                   22599999999999999999999883       388888887653


Q ss_pred             C------hHHHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhc
Q 037859          264 D------NSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID  337 (504)
Q Consensus       264 ~------~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD  337 (504)
                      .      ...+..+|... .++||||||+|.++.   .+                       .+.......++.|++.++
T Consensus       112 ~~~~g~~~~~~~~~~~~~-~~~vl~iDEid~l~~---~~-----------------------~~~~~~~~~~~~Ll~~l~  164 (309)
T 3syl_A          112 GQYIGHTAPKTKEVLKRA-MGGVLFIDEAYYLYR---PD-----------------------NERDYGQEAIEILLQVME  164 (309)
T ss_dssp             CSSTTCHHHHHHHHHHHH-TTSEEEEETGGGSCC---CC--------------------------CCTHHHHHHHHHHHH
T ss_pred             hhcccccHHHHHHHHHhc-CCCEEEEEChhhhcc---CC-----------------------CcccccHHHHHHHHHHHh
Confidence            2      24456666554 678999999999752   11                       011224557788888888


Q ss_pred             CccccCCCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          338 GLWSASGEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       338 g~~~~~~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      ..    ...+++|+|||..+     .++|+|.+  ||+.+|+|+.|+.+++..|++.++..
T Consensus       165 ~~----~~~~~~i~~~~~~~~~~~~~~~~~l~~--R~~~~i~~~~~~~~~~~~il~~~l~~  219 (309)
T 3syl_A          165 NN----RDDLVVILAGYADRMENFFQSNPGFRS--RIAHHIEFPDYSDEELFEIAGHMLDD  219 (309)
T ss_dssp             HC----TTTCEEEEEECHHHHHHHHHHSTTHHH--HEEEEEEECCCCHHHHHHHHHHHHHH
T ss_pred             cC----CCCEEEEEeCChHHHHHHHhhCHHHHH--hCCeEEEcCCcCHHHHHHHHHHHHHH
Confidence            53    34578899998654     35899999  99999999999999999999998854

>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=99.68  E-value=2e-16  Score=157.66  Aligned_cols=157  Identities=19%  Similarity=0.286  Sum_probs=113.6

Q ss_pred             ccccChhHHHHHHHhh------------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC-------
Q 037859          210 TLAMETKKKEEIKKDL------------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD-------  264 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l------------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~-------  264 (504)
                      .+++.+..++.+...+                  ++++||+||||||||++|+++|+.++.+++.++++.+..       
T Consensus        16 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~~   95 (310)
T 1ofh_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   95 (310)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGS
T ss_pred             hcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCcc
Confidence            3667777777666544                  457999999999999999999999999999999876532       


Q ss_pred             -hHHHHHHHHhc-------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhh
Q 037859          265 -NSELRSLLIDT-------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI  336 (504)
Q Consensus       265 -~~~l~~l~~~~-------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~l  336 (504)
                       ...++.++...       ..++||||||||.+.....                       ..+.........+.||..+
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~-----------------------~~~~~~~~~~~~~~Ll~~l  152 (310)
T 1ofh_A           96 VDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGE-----------------------YSGADVSREGVQRDLLPLV  152 (310)
T ss_dssp             TTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSS-----------------------CCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCcccc-----------------------ccccchhHHHHHHHHHHHh
Confidence             23466666543       2479999999999742100                       0011122233467788888


Q ss_pred             cCcccc------CCCceEEEEe----cCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          337 DGLWSA------SGEERIIVFT----TNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       337 Dg~~~~------~~~~~ivI~t----TN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      ++....      ....+++|+|    ++.+..++|+|++  ||+.+|+|+.|+.+++..|++..+
T Consensus       153 e~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~l~~~l~~--R~~~~i~~~~~~~~~~~~il~~~~  215 (310)
T 1ofh_A          153 EGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQG--RLPIRVELTALSAADFERILTEPH  215 (310)
T ss_dssp             HCCEEEETTEEEECTTCEEEEEECCSSSCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHSST
T ss_pred             cCCeEecccccccCCcEEEEEcCCcccCCcccCCHHHHh--hCCceEEcCCcCHHHHHHHHHhhH
Confidence            864210      1235778888    5677889999999  999999999999999999998543

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.66  E-value=8.5e-17  Score=147.77  Aligned_cols=148  Identities=20%  Similarity=0.269  Sum_probs=104.8

Q ss_pred             CCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccC----C-
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQ----D-  264 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~----~-  264 (504)
                      .|..|+.+++.++..+.+.+.+    ++++||+||||||||++++++|+.+          +.+++.+++....    . 
T Consensus        17 ~~~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (195)
T 1jbk_A           17 EQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYR   96 (195)
T ss_dssp             HTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSH
T ss_pred             hhccccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhccCCcc
Confidence            3667888999998889988887    4669999999999999999999986          7888888876542    1 


Q ss_pred             ---hHHHHHHHH---hccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          265 ---NSELRSLLI---DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       265 ---~~~l~~l~~---~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                         ...+..++.   ....++||+|||+|.+....+.                        .........+..++   + 
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~------------------------~~~~~~~~~l~~~~---~-  148 (195)
T 1jbk_A           97 GEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKA------------------------DGAMDAGNMLKPAL---A-  148 (195)
T ss_dssp             HHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------------------------------CCCCHHHHHHHH---H-
T ss_pred             ccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcc------------------------cchHHHHHHHHHhh---c-
Confidence               123444444   3356889999999997421100                        00111112222222   2 


Q ss_pred             ccccCCCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHH
Q 037859          339 LWSASGEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLA  387 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~  387 (504)
                           ...+.+|+|||.++     .+|++|.+  ||+ .|+++.|+.+++.+|+
T Consensus       149 -----~~~~~~i~~~~~~~~~~~~~~~~~l~~--r~~-~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          149 -----RGELHCVGATTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             -----TTSCCEEEEECHHHHHHHTTTCHHHHT--TEE-EEECCCCCHHHHHTTC
T ss_pred             -----cCCeEEEEeCCHHHHHHHHhcCHHHHH--Hhc-eeecCCCCHHHHHHHh
Confidence                 13467888888776     78999999  997 7999999999988764

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.66  E-value=2.7e-16  Score=159.15  Aligned_cols=152  Identities=16%  Similarity=0.186  Sum_probs=110.4

Q ss_pred             CccccccccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHH---------
Q 037859          205 PATFDTLAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLI---------  273 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~---------  273 (504)
                      |..++.+.++++.++.+...+  ++++|||||||||||++|+++|+.++.+++.+++.......++.....         
T Consensus        23 ~~~~~~i~g~~~~~~~l~~~l~~~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l~g~~~~~~~~~~~~  102 (331)
T 2r44_A           23 DEVGKVVVGQKYMINRLLIGICTGGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDLIGTMIYNQHKGNFE  102 (331)
T ss_dssp             HHHTTTCCSCHHHHHHHHHHHHHTCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHHHEEEEEETTTTEEE
T ss_pred             HHhccceeCcHHHHHHHHHHHHcCCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhcCCceeecCCCCceE
Confidence            344667788888888887777  678999999999999999999999999999998754333333221100         


Q ss_pred             hccC---CeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC-------ccccC
Q 037859          274 DTSS---KSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG-------LWSAS  343 (504)
Q Consensus       274 ~~~~---~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg-------~~~~~  343 (504)
                      -...   .+|+||||||.+-                                   ....+.|+..|+.       .....
T Consensus       103 ~~~g~l~~~vl~iDEi~~~~-----------------------------------~~~~~~Ll~~l~~~~~~~~g~~~~~  147 (331)
T 2r44_A          103 VKKGPVFSNFILADEVNRSP-----------------------------------AKVQSALLECMQEKQVTIGDTTYPL  147 (331)
T ss_dssp             EEECTTCSSEEEEETGGGSC-----------------------------------HHHHHHHHHHHHHSEEEETTEEEEC
T ss_pred             eccCcccccEEEEEccccCC-----------------------------------HHHHHHHHHHHhcCceeeCCEEEEC
Confidence            0112   3799999999851                                   2244555555542       11112


Q ss_pred             CCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          344 GEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       344 ~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      ....++|+|+|..+     .++++|++  ||+.++.+++|+.+++..|++.++..
T Consensus       148 ~~~~~viat~np~~~~~~~~l~~~l~~--Rf~~~i~i~~p~~~~~~~il~~~~~~  200 (331)
T 2r44_A          148 DNPFLVLATQNPVEQEGTYPLPEAQVD--RFMMKIHLTYLDKESELEVMRRVSNM  200 (331)
T ss_dssp             CSSCEEEEEECTTCCSCCCCCCHHHHT--TSSEEEECCCCCHHHHHHHHHHHHCT
T ss_pred             CCCEEEEEecCCCcccCcccCCHHHHh--heeEEEEcCCCCHHHHHHHHHhcccc
Confidence            34467888888654     38999999  99999999999999999999988754

>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=99.66  E-value=1.1e-15  Score=145.42  Aligned_cols=148  Identities=18%  Similarity=0.309  Sum_probs=113.8

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------c
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------D  253 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~  253 (504)
                      ..|..|+.+++.+..++.+...+     ++.++|+||||||||++++++++.++.                        +
T Consensus        17 ~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (250)
T 1njg_A           17 WRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVD   96 (250)
T ss_dssp             TCCCSGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSS
T ss_pred             cCCccHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcc
Confidence            45778999999999998888887     236899999999999999999988743                        3


Q ss_pred             EEEEeccccCChHHHHHHHHhcc------CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhh
Q 037859          254 VYDLELTTVQDNSELRSLLIDTS------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV  327 (504)
Q Consensus       254 i~~l~~~~~~~~~~l~~l~~~~~------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  327 (504)
                      ++.++.........++.++....      .+.+|+|||+|.+.                                   ..
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~-----------------------------------~~  141 (250)
T 1njg_A           97 LIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLS-----------------------------------RH  141 (250)
T ss_dssp             EEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSC-----------------------------------HH
T ss_pred             eEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECccccc-----------------------------------HH
Confidence            34444433233455666666542      57899999999851                                   12


Q ss_pred             HHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          328 TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       328 ~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .+..|+..++..    ....++|++||.++.+++++.+  |+ ..|+++.++.++...+++.++.
T Consensus       142 ~~~~l~~~l~~~----~~~~~~i~~t~~~~~~~~~l~~--r~-~~i~l~~l~~~e~~~~l~~~~~  199 (250)
T 1njg_A          142 SFNALLKTLEEP----PEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILN  199 (250)
T ss_dssp             HHHHHHHHHHSC----CTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC----CCceEEEEEeCChHhCCHHHHH--Hh-hhccCCCCCHHHHHHHHHHHHH
Confidence            456677777643    3457899999999999999999  86 6899999999999999988774

>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=99.65  E-value=1.9e-16  Score=162.65  Aligned_cols=158  Identities=20%  Similarity=0.295  Sum_probs=110.0

Q ss_pred             cccChhHHHHHHHhh-------------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC-------
Q 037859          211 LAMETKKKEEIKKDL-------------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD-------  264 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l-------------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~-------  264 (504)
                      +++++..++.+...+                   ++++||+||||||||++|+++|+.++.+++.++++.+..       
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~~   96 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGED   96 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhccccccccc
Confidence            567777777776655                   367999999999999999999999999999999987642       


Q ss_pred             -hHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhc
Q 037859          265 -NSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID  337 (504)
Q Consensus       265 -~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD  337 (504)
                       ...+..++...      ..++||||||||.+..   .+..                  ...+........++.||..||
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~---~~~~------------------~~~~~~~~~~~~~~~Ll~~le  155 (363)
T 3hws_A           97 VENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISR---KSDN------------------PSITRDVSGEGVQQALLKLIE  155 (363)
T ss_dssp             HTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCC---CSSC------------------C---CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcc---cccc------------------cccccccchHHHHHHHHHHhc
Confidence             23345555544      3578999999998742   1100                  001112223347899999999


Q ss_pred             Ccccc-----------------CCCceEEEEecCCC----------CC--------------------------------
Q 037859          338 GLWSA-----------------SGEERIIVFTTNYV----------DK--------------------------------  358 (504)
Q Consensus       338 g~~~~-----------------~~~~~ivI~tTN~~----------e~--------------------------------  358 (504)
                      |....                 ...++++|+|+|..          ..                                
T Consensus       156 g~~~~~~~~~~~~~~~~~~~~i~tsn~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~  235 (363)
T 3hws_A          156 GTVAAVPPQGGRKHPQQEFLQVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLI  235 (363)
T ss_dssp             CC----------------CCCCCTTSSEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTCCHHHHH
T ss_pred             CceeeccCccccccCCCceEEEECCCceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhCCHHHHH
Confidence            64210                 11224455555432          11                                


Q ss_pred             ---CChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          359 ---LDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       359 ---Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                         ++|+|+.  |||..+.|..|+.+.+..|+...+
T Consensus       236 ~~~~~~~l~~--R~~~~~~~~pl~~~~~~~I~~~~~  269 (363)
T 3hws_A          236 KFGLIPEFIG--RLPVVATLNELSEEALIQILKEPK  269 (363)
T ss_dssp             HHTCCHHHHT--TCCEEEECCCCCHHHHHHHHHSST
T ss_pred             HcCCCHHHhc--ccCeeeecCCCCHHHHHHHHHHHH
Confidence               7899998  999999999999999999998743

>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=99.65  E-value=1.2e-15  Score=164.85  Aligned_cols=150  Identities=21%  Similarity=0.226  Sum_probs=109.1

Q ss_pred             ccccccChhHHHHHHHhh----------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChH-----------
Q 037859          208 FDTLAMETKKKEEIKKDL----------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNS-----------  266 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l----------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~-----------  266 (504)
                      .+.+.+..+.++.+.+.+          +..+||+||||||||+++++||+.++.++..+++..+....           
T Consensus        80 ~~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g~~~~~ig  159 (543)
T 3m6a_A           80 DEEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRRTYVG  159 (543)
T ss_dssp             HHHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC----------------
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhhHHHHHhc
Confidence            445778888888776654          34599999999999999999999999999999887753322           


Q ss_pred             ----HHHHHHHhcc-CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          267 ----ELRSLLIDTS-SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       267 ----~l~~l~~~~~-~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                          .+...|..+. .+.|+||||||.+..   .+                            .....+.||..||....
T Consensus       160 ~~~~~~~~~~~~a~~~~~vl~lDEid~l~~---~~----------------------------~~~~~~~LL~~ld~~~~  208 (543)
T 3m6a_A          160 AMPGRIIQGMKKAGKLNPVFLLDEIDKMSS---DF----------------------------RGDPSSAMLEVLDPEQN  208 (543)
T ss_dssp             ----CHHHHHHTTCSSSEEEEEEESSSCC----------------------------------------CCGGGTCTTTT
T ss_pred             cCchHHHHHHHHhhccCCEEEEhhhhhhhh---hh----------------------------ccCHHHHHHHHHhhhhc
Confidence                1233444442 456999999999731   10                            11245678888875431


Q ss_pred             c-----------CCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          342 A-----------SGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       342 ~-----------~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .           .-..++||+|||.++.|||+|++  ||+ .|.|+.|+.+++..|++.|+
T Consensus       209 ~~~~~~~~~~~~~~~~v~iI~ttN~~~~l~~aL~~--R~~-vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          209 SSFSDHYIEETFDLSKVLFIATANNLATIPGPLRD--RME-IINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             TBCCCSSSCCCCBCSSCEEEEECSSTTTSCHHHHH--HEE-EEECCCCCHHHHHHHHHHTH
T ss_pred             ceeecccCCeeecccceEEEeccCccccCCHHHHh--hcc-eeeeCCCCHHHHHHHHHHHH
Confidence            1           01457999999999999999999  996 69999999999999999987

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.65  E-value=6.2e-16  Score=158.40  Aligned_cols=148  Identities=16%  Similarity=0.163  Sum_probs=104.1

Q ss_pred             CCcc-ccccccChhHHHHH---HHhh------cccccccCCCCCcHHHHHHHHHHhcCC--cEEEEeccccC--------
Q 037859          204 HPAT-FDTLAMETKKKEEI---KKDL------KKGYLLYGPPGTGKSTMIAAMANFLNY--DVYDLELTTVQ--------  263 (504)
Q Consensus       204 ~p~~-f~~~~~~~~~k~~i---~~~l------~rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l~~~~~~--------  263 (504)
                      +|.. |+.+++.+..++.+   ...+      ++++|||||||||||++|+++|+.++.  +++.+++..+.        
T Consensus        38 ~p~~~~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~  117 (368)
T 3uk6_A           38 EPRQASQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTE  117 (368)
T ss_dssp             CBCSEETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGGGSCSSSCHHH
T ss_pred             CcCcchhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchhhhhcccchhH
Confidence            4555 99999999887764   3333      357999999999999999999999975  66666643310        


Q ss_pred             ------------------------------------------C-----hHHHHHHHHhcc-----------CCeEEEEec
Q 037859          264 ------------------------------------------D-----NSELRSLLIDTS-----------SKSILVIED  285 (504)
Q Consensus       264 ------------------------------------------~-----~~~l~~l~~~~~-----------~~~Il~iDe  285 (504)
                                                                .     ...++..+....           .|+||||||
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDE  197 (368)
T 3uk6_A          118 ALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDE  197 (368)
T ss_dssp             HHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEES
T ss_pred             HHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhh
Confidence                                                      1     233444443321           268999999


Q ss_pred             ccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEec-----------C
Q 037859          286 IDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTT-----------N  354 (504)
Q Consensus       286 iD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tT-----------N  354 (504)
                      ||.+.                                   ...++.|+..++..    ...+++++|.           |
T Consensus       198 i~~l~-----------------------------------~~~~~~L~~~le~~----~~~~~ii~t~~~~~~i~~t~~~  238 (368)
T 3uk6_A          198 VHMLD-----------------------------------IESFSFLNRALESD----MAPVLIMATNRGITRIRGTSYQ  238 (368)
T ss_dssp             GGGSB-----------------------------------HHHHHHHHHHTTCT----TCCEEEEEESCSEEECBTSSCE
T ss_pred             ccccC-----------------------------------hHHHHHHHHHhhCc----CCCeeeeecccceeeeeccCCC
Confidence            99862                                   23556677766543    1224433333           3


Q ss_pred             CCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          355 YVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       355 ~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      .+..++++|++  ||.. |.|+.|+.+++..+++.++..
T Consensus       239 ~~~~l~~~l~s--R~~~-i~~~~~~~~e~~~il~~~~~~  274 (368)
T 3uk6_A          239 SPHGIPIDLLD--RLLI-VSTTPYSEKDTKQILRIRCEE  274 (368)
T ss_dssp             EETTCCHHHHT--TEEE-EEECCCCHHHHHHHHHHHHHH
T ss_pred             CcccCCHHHHh--hccE-EEecCCCHHHHHHHHHHHHHH
Confidence            57889999999  9965 899999999999999987653

>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=99.63  E-value=1.2e-15  Score=152.44  Aligned_cols=148  Identities=18%  Similarity=0.244  Sum_probs=114.1

Q ss_pred             CCCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccccCChHHHHH---
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDNSELRS---  270 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~~~l~~---  270 (504)
                      ..|.+|+++++.+..++.+...+    ...||||||||||||++|+++|+.+     +.+++.++++...+...++.   
T Consensus        11 ~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (319)
T 2chq_A           11 YRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIK   90 (319)
T ss_dssp             TSCSSGGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTSSHHHH
T ss_pred             cCCCCHHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHHHHHHH
Confidence            46888999999999999999888    2249999999999999999999987     34577888776433222222   


Q ss_pred             HHH-hc----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCC
Q 037859          271 LLI-DT----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGE  345 (504)
Q Consensus       271 l~~-~~----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~  345 (504)
                      .+. ..    ..+.||+|||+|.+.                                   ......|+..++..    ..
T Consensus        91 ~~~~~~~~~~~~~~vliiDe~~~l~-----------------------------------~~~~~~L~~~le~~----~~  131 (319)
T 2chq_A           91 EFARTAPIGGAPFKIIFLDEADALT-----------------------------------ADAQAALRRTMEMY----SK  131 (319)
T ss_dssp             HHHHSCCSSSCCCEEEEEETGGGSC-----------------------------------HHHHHTTGGGTSSS----SS
T ss_pred             HHHhcCCCCCCCceEEEEeCCCcCC-----------------------------------HHHHHHHHHHHHhc----CC
Confidence            222 11    357999999999862                                   12456677777653    34


Q ss_pred             ceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          346 ERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       346 ~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ..++|++||.++.+++++.+  |+. .+.|+.|+.+++..++..++.
T Consensus       132 ~~~~i~~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~  175 (319)
T 2chq_A          132 SCRFILSCNYVSRIIEPIQS--RCA-VFRFKPVPKEAMKKRLLEICE  175 (319)
T ss_dssp             SEEEEEEESCGGGSCHHHHT--TCE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCChhhcchHHHh--hCe-EEEecCCCHHHHHHHHHHHHH
Confidence            57889999999999999999  885 899999999999999887764

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.63  E-value=1.1e-15  Score=161.14  Aligned_cols=145  Identities=20%  Similarity=0.320  Sum_probs=110.9

Q ss_pred             CCCccccccccChhHH---HHHHHhh----cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhc
Q 037859          203 EHPATFDTLAMETKKK---EEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDT  275 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k---~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~  275 (504)
                      ..|.+|+.+++++..+   +.+...+    ..++|||||||||||++|++||+.++.+++.+++... +...++.++..+
T Consensus        20 ~rP~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~~-~~~~ir~~~~~a   98 (447)
T 3pvs_A           20 MRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANADVERISAVTS-GVKEIREAIERA   98 (447)
T ss_dssp             TCCCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTTC-CHHHHHHHHHHH
T ss_pred             hCCCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEeccC-CHHHHHHHHHHH
Confidence            4688999999999877   5555555    3469999999999999999999999999999987654 345566666553


Q ss_pred             ------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEE
Q 037859          276 ------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERII  349 (504)
Q Consensus       276 ------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~iv  349 (504)
                            ..++||||||||.+-                                   ......||..++.      +.+++
T Consensus        99 ~~~~~~~~~~iLfIDEI~~l~-----------------------------------~~~q~~LL~~le~------~~v~l  137 (447)
T 3pvs_A           99 RQNRNAGRRTILFVDEVHRFN-----------------------------------KSQQDAFLPHIED------GTITF  137 (447)
T ss_dssp             HHHHHTTCCEEEEEETTTCC-----------------------------------------CCHHHHHT------TSCEE
T ss_pred             HHhhhcCCCcEEEEeChhhhC-----------------------------------HHHHHHHHHHHhc------CceEE
Confidence                  368999999999862                                   1133457777764      23566


Q ss_pred             EEec--CCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          350 VFTT--NYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       350 I~tT--N~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      |++|  |....++++|++  |+. .+.|+.|+.+++..++++++.
T Consensus       138 I~att~n~~~~l~~aL~s--R~~-v~~l~~l~~edi~~il~~~l~  179 (447)
T 3pvs_A          138 IGATTENPSFELNSALLS--RAR-VYLLKSLSTEDIEQVLTQAME  179 (447)
T ss_dssp             EEEESSCGGGSSCHHHHT--TEE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             EecCCCCcccccCHHHhC--cee-EEeeCCcCHHHHHHHHHHHHH
Confidence            6655  555689999999  885 788999999999999998864

>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=99.62  E-value=1e-15  Score=150.62  Aligned_cols=136  Identities=23%  Similarity=0.294  Sum_probs=97.7

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC---C----hHHHHHHHHhc--cCCeEEEEecccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ---D----NSELRSLLIDT--SSKSILVIEDIDCSLDLTGQR  296 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~---~----~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~  296 (504)
                      ++++|||||||||||++|+++|+.++.+++.+++....   .    ...++.+|..+  ..++||||||||.++.   .+
T Consensus        64 ~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~---~~  140 (272)
T 1d2n_A           64 LVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLD---YV  140 (272)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTT---CB
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhc---cC
Confidence            67899999999999999999999999999999876421   1    13466667654  4689999999999753   11


Q ss_pred             cccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCCh-hhhcCCCceeEEEe
Q 037859          297 EKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDP-ALIRRGRMDKHIEM  375 (504)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~-ALlRpGR~d~~I~~  375 (504)
                      .                      .+.......+..|+..+++... .+..++||+|||.++.+|+ ++.+  ||+..|++
T Consensus       141 ~----------------------~~~~~~~~~l~~L~~~~~~~~~-~~~~~~ii~ttn~~~~l~~~~l~~--rf~~~i~~  195 (272)
T 1d2n_A          141 P----------------------IGPRFSNLVLQALLVLLKKAPP-QGRKLLIIGTTSRKDVLQEMEMLN--AFSTTIHV  195 (272)
T ss_dssp             T----------------------TTTBCCHHHHHHHHHHTTCCCS-TTCEEEEEEEESCHHHHHHTTCTT--TSSEEEEC
T ss_pred             C----------------------CChhHHHHHHHHHHHHhcCccC-CCCCEEEEEecCChhhcchhhhhc--ccceEEcC
Confidence            0                      1112234456667777776532 3455789999999999988 5555  99999999


Q ss_pred             cCCCH-HHHHHHHHH
Q 037859          376 SYCCF-EAFKVLAKN  389 (504)
Q Consensus       376 ~~p~~-e~~~~i~~~  389 (504)
                      +.++. ++...++..
T Consensus       196 p~l~~r~~i~~i~~~  210 (272)
T 1d2n_A          196 PNIATGEQLLEALEL  210 (272)
T ss_dssp             CCEEEHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHHh
Confidence            87654 555555443

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.62  E-value=2e-15  Score=150.94  Aligned_cols=169  Identities=15%  Similarity=0.287  Sum_probs=116.8

Q ss_pred             ccccChhHHHHHHHhhc-------------ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHHHH
Q 037859          210 TLAMETKKKEEIKKDLK-------------KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSLLI  273 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l~-------------rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~~  273 (504)
                      .+++....++.+...+.             ..+||+||||||||++|+++|+.+   +.+++.++++..........++.
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~l~g   97 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIG   97 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHHHHHHC
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccHHHhcC
Confidence            45566777777766661             258999999999999999999998   55699999987654333333321


Q ss_pred             ---------------h---ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhh
Q 037859          274 ---------------D---TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNF  335 (504)
Q Consensus       274 ---------------~---~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~  335 (504)
                                     .   ....+||||||||.+-                                   ....+.|+..
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~-----------------------------------~~~~~~Ll~~  142 (311)
T 4fcw_A           98 APPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAH-----------------------------------PDVFNILLQM  142 (311)
T ss_dssp             CCTTSTTTTTCCHHHHHHHHCSSEEEEEETGGGSC-----------------------------------HHHHHHHHHH
T ss_pred             CCCccccccccchHHHHHHhCCCeEEEEeChhhcC-----------------------------------HHHHHHHHHH
Confidence                           1   1245899999999851                                   2356677777


Q ss_pred             hcCccccCC-------CceEEEEecCC--------------------------CCCCChhhhcCCCceeEEEecCCCHHH
Q 037859          336 IDGLWSASG-------EERIIVFTTNY--------------------------VDKLDPALIRRGRMDKHIEMSYCCFEA  382 (504)
Q Consensus       336 lDg~~~~~~-------~~~ivI~tTN~--------------------------~e~Ld~ALlRpGR~d~~I~~~~p~~e~  382 (504)
                      |+.......       .+.++|+|||.                          ...++|+|++  ||+..+.+.+|+.++
T Consensus       143 le~~~~~~~~~~~~~~~~~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~--R~~~~~~~~p~~~~~  220 (311)
T 4fcw_A          143 LDDGRLTDSHGRTVDFRNTVIIMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQ  220 (311)
T ss_dssp             HHHSEEECTTSCEEECTTEEEEEEESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHT--TCSEEEECCCCCHHH
T ss_pred             HhcCEEEcCCCCEEECCCcEEEEecccCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHh--cCCeEEEeCCCCHHH
Confidence            764321111       25789999998                          5578999998  999999999999999


Q ss_pred             HHHHHHHhcCcCCcchHHHHhcCccCCCCCHHHHHHh
Q 037859          383 FKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAEN  419 (504)
Q Consensus       383 ~~~i~~~~l~~~~~~~~~~i~~l~~~~~~s~a~i~~~  419 (504)
                      +..|++.++..    ....+...-....++++.+..+
T Consensus       221 ~~~i~~~~l~~----~~~~~~~~~~~~~~~~~~~~~l  253 (311)
T 4fcw_A          221 IRQIVEIQMSY----LRARLAEKRISLELTEAAKDFL  253 (311)
T ss_dssp             HHHHHHHHTHH----HHHHHHTTTCEEEECHHHHHHH
T ss_pred             HHHHHHHHHHH----HHHHHHhCCcEEEeCHHHHHHH
Confidence            99999998742    1122221111235777666543

>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=3.2e-15  Score=151.84  Aligned_cols=148  Identities=20%  Similarity=0.277  Sum_probs=112.8

Q ss_pred             CCCccccccccChhHHHHHHHhhc----ccccccCCCCCcHHHHHHHHHHhcC------CcEEEEeccccCChHHHHHHH
Q 037859          203 EHPATFDTLAMETKKKEEIKKDLK----KGYLLYGPPGTGKSTMIAAMANFLN------YDVYDLELTTVQDNSELRSLL  272 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l~----rg~LL~GPpGtGKTsla~aiA~~l~------~~i~~l~~~~~~~~~~l~~l~  272 (504)
                      ..|.+|+.+++.++.++.+...+.    .++|||||||||||++++++|+.++      ..+..++++.......++..+
T Consensus        31 ~~p~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (353)
T 1sxj_D           31 YRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKV  110 (353)
T ss_dssp             TCCSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHH
T ss_pred             cCCCCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHHHHH
Confidence            478899999999999999998883    3499999999999999999999864      457788877654444443322


Q ss_pred             ---Hh---------------ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhh
Q 037859          273 ---ID---------------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLN  334 (504)
Q Consensus       273 ---~~---------------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~  334 (504)
                         ..               .+.+.||+|||+|.+.                                   ....+.|+.
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~-----------------------------------~~~~~~Ll~  155 (353)
T 1sxj_D          111 KNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMT-----------------------------------ADAQSALRR  155 (353)
T ss_dssp             HHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSC-----------------------------------HHHHHHHHH
T ss_pred             HHHhhhcccccchhhcccCCCCCceEEEEECCCccC-----------------------------------HHHHHHHHH
Confidence               11               1345799999999862                                   123456777


Q ss_pred             hhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          335 FIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       335 ~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .++..    .....+|++||+++.+++++.+  |+. .+.|+.|+.++...+++..+.
T Consensus       156 ~le~~----~~~~~~il~~~~~~~l~~~l~s--R~~-~i~~~~~~~~~~~~~l~~~~~  206 (353)
T 1sxj_D          156 TMETY----SGVTRFCLICNYVTRIIDPLAS--QCS-KFRFKALDASNAIDRLRFISE  206 (353)
T ss_dssp             HHHHT----TTTEEEEEEESCGGGSCHHHHH--HSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHhc----CCCceEEEEeCchhhCcchhhc--cCc-eEEeCCCCHHHHHHHHHHHHH
Confidence            76643    2345677889999999999999  885 899999999999888887653

>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=4.7e-15  Score=148.70  Aligned_cols=148  Identities=18%  Similarity=0.239  Sum_probs=111.4

Q ss_pred             CCCccccccccChhHHHHHHHhhc----ccccccCCCCCcHHHHHHHHHHhcC-----CcEEEEeccccCChHHHHHHHH
Q 037859          203 EHPATFDTLAMETKKKEEIKKDLK----KGYLLYGPPGTGKSTMIAAMANFLN-----YDVYDLELTTVQDNSELRSLLI  273 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l~----rg~LL~GPpGtGKTsla~aiA~~l~-----~~i~~l~~~~~~~~~~l~~l~~  273 (504)
                      ..|.+|+.+++.++.++.+...+.    .++|||||||||||++|+++|+.+.     .+++.++++...+...++..+.
T Consensus        19 ~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (327)
T 1iqp_A           19 YRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVK   98 (327)
T ss_dssp             TCCCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHH
T ss_pred             cCCCCHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHHHHHHH
Confidence            568889999999999999888872    2499999999999999999999863     3467777654322222222221


Q ss_pred             ----hc----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCC
Q 037859          274 ----DT----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGE  345 (504)
Q Consensus       274 ----~~----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~  345 (504)
                          ..    ..+.||+|||+|.+.                                   ....+.|+..++..    ..
T Consensus        99 ~~~~~~~~~~~~~~vliiDe~~~l~-----------------------------------~~~~~~L~~~le~~----~~  139 (327)
T 1iqp_A           99 EFARTKPIGGASFKIIFLDEADALT-----------------------------------QDAQQALRRTMEMF----SS  139 (327)
T ss_dssp             HHHHSCCGGGCSCEEEEEETGGGSC-----------------------------------HHHHHHHHHHHHHT----TT
T ss_pred             HHHhhCCcCCCCCeEEEEeCCCcCC-----------------------------------HHHHHHHHHHHHhc----CC
Confidence                11    357899999999852                                   12455667666643    34


Q ss_pred             ceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          346 ERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       346 ~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ..++|++||.++.+++++.+  |+. .+.|+.++.++...+++.++.
T Consensus       140 ~~~~i~~~~~~~~l~~~l~s--r~~-~~~~~~l~~~~~~~~l~~~~~  183 (327)
T 1iqp_A          140 NVRFILSCNYSSKIIEPIQS--RCA-IFRFRPLRDEDIAKRLRYIAE  183 (327)
T ss_dssp             TEEEEEEESCGGGSCHHHHH--TEE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCccccCHHHHh--hCc-EEEecCCCHHHHHHHHHHHHH
Confidence            57888899999999999999  885 799999999999998887764

>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=99.58  E-value=1.2e-14  Score=148.81  Aligned_cols=148  Identities=18%  Similarity=0.309  Sum_probs=113.2

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------c
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------D  253 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~  253 (504)
                      ..|..|+++++.+..++.+...+     +..|||+||||||||++++++|+.++.                        +
T Consensus        10 ~rp~~~~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (373)
T 1jr3_A           10 WRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVD   89 (373)
T ss_dssp             TCCCSTTTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHTSCCSS
T ss_pred             hCCCchhhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhccCCCc
Confidence            46788999999999988888877     345899999999999999999998864                        3


Q ss_pred             EEEEeccccCChHHHHHHHHhc------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhh
Q 037859          254 VYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV  327 (504)
Q Consensus       254 i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  327 (504)
                      ++.++.........++.++...      ..+.||+|||+|.+-                                   ..
T Consensus        90 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~-----------------------------------~~  134 (373)
T 1jr3_A           90 LIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLS-----------------------------------RH  134 (373)
T ss_dssp             CEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSC-----------------------------------HH
T ss_pred             eEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhc-----------------------------------HH
Confidence            4555543322223455555543      246899999999851                                   22


Q ss_pred             HHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          328 TLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       328 ~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ..+.|+..++..    ...+++|++||.++.+++++.+  |+ ..+.|+.|+.++...+++.++.
T Consensus       135 ~~~~Ll~~le~~----~~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~l~~~~~~~~l~~~~~  192 (373)
T 1jr3_A          135 SFNALLKTLEEP----PEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILN  192 (373)
T ss_dssp             HHHHHHHHHHSC----CSSEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC----CCceEEEEEeCChHhCcHHHHh--he-eEeeCCCCCHHHHHHHHHHHHH
Confidence            456677777643    3458899999999999999998  87 6899999999999999987763

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.57  E-value=1.9e-15  Score=138.48  Aligned_cols=141  Identities=18%  Similarity=0.264  Sum_probs=98.5

Q ss_pred             CCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccC----C-
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQ----D-  264 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~----~-  264 (504)
                      .|..|+.+++.+...+.+.+.+    ++++||+||||||||++++++|+.+          +.+++.+++..+.    . 
T Consensus        17 ~~~~~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (187)
T 2p65_A           17 RAGKLDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGAKYR   96 (187)
T ss_dssp             HTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHHHHHHCCSH
T ss_pred             hccccchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHHhhcCCCch
Confidence            3667889999998888888877    5679999999999999999999987          7788888776542    1 


Q ss_pred             ---hHHHHHHHHh---ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          265 ---NSELRSLLID---TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       265 ---~~~l~~l~~~---~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                         ...+..++..   ...+.||+|||+|.+..   .+.                       ...........|+..++.
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~---~~~-----------------------~~~~~~~~~~~l~~~~~~  150 (187)
T 2p65_A           97 GDFEERLKSILKEVQDAEGQVVMFIDEIHTVVG---AGA-----------------------VAEGALDAGNILKPMLAR  150 (187)
T ss_dssp             HHHHHHHHHHHHHHHHTTTSEEEEETTGGGGSS---SSS-----------------------SCTTSCCTHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHhcCCceEEEEeCHHHhcc---ccc-----------------------ccccchHHHHHHHHHHhc
Confidence               1124444433   34678999999999742   110                       000011122333333332


Q ss_pred             ccccCCCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCC
Q 037859          339 LWSASGEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCC  379 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~  379 (504)
                            ..+++|++||.++     .+|++|.+  ||+ .|+++.|+
T Consensus       151 ------~~~~ii~~~~~~~~~~~~~~~~~l~~--R~~-~i~i~~p~  187 (187)
T 2p65_A          151 ------GELRCIGATTVSEYRQFIEKDKALER--RFQ-QILVEQPS  187 (187)
T ss_dssp             ------TCSCEEEEECHHHHHHHTTTCHHHHH--HEE-EEECCSCC
T ss_pred             ------CCeeEEEecCHHHHHHHHhccHHHHH--hcC-cccCCCCC
Confidence                  3477899998775     68999999  998 59999885

>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=99.57  E-value=9.7e-15  Score=146.17  Aligned_cols=149  Identities=15%  Similarity=0.188  Sum_probs=114.6

Q ss_pred             cCCCccccccccChhHHHHHHHhhc----ccccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccccCChHHHHHHH
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDLK----KGYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDNSELRSLL  272 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l~----rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~~~l~~l~  272 (504)
                      -..|..|+.+++.+..++.+...+.    ..+|||||||||||++++++|+.+     +.+++.+++....+...++.++
T Consensus        14 ~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~~   93 (323)
T 1sxj_B           14 KYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQI   93 (323)
T ss_dssp             HTCCSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHH
T ss_pred             hcCCCCHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHHHHHH
Confidence            3568889999999999998888872    239999999999999999999986     3457778776654455565554


Q ss_pred             Hhc---------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccC
Q 037859          273 IDT---------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS  343 (504)
Q Consensus       273 ~~~---------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~  343 (504)
                      ...         ..+.||+|||+|.+.                                   ......|+..++..    
T Consensus        94 ~~~~~~~~~~~~~~~~viiiDe~~~l~-----------------------------------~~~~~~L~~~le~~----  134 (323)
T 1sxj_B           94 KHFAQKKLHLPPGKHKIVILDEADSMT-----------------------------------AGAQQALRRTMELY----  134 (323)
T ss_dssp             HHHHHBCCCCCTTCCEEEEEESGGGSC-----------------------------------HHHHHTTHHHHHHT----
T ss_pred             HHHHhccccCCCCCceEEEEECcccCC-----------------------------------HHHHHHHHHHHhcc----
Confidence            421         247899999999862                                   12345566666542    


Q ss_pred             CCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          344 GEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       344 ~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ....++|++||.++.+++++.+  |+. .+.|+.|+.++...+++.++.
T Consensus       135 ~~~~~~il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~  180 (323)
T 1sxj_B          135 SNSTRFAFACNQSNKIIEPLQS--QCA-ILRYSKLSDEDVLKRLLQIIK  180 (323)
T ss_dssp             TTTEEEEEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             CCCceEEEEeCChhhchhHHHh--hce-EEeecCCCHHHHHHHHHHHHH
Confidence            2457888899999999999999  874 899999999999999887653

>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=99.56  E-value=1.8e-14  Score=154.88  Aligned_cols=155  Identities=17%  Similarity=0.280  Sum_probs=108.7

Q ss_pred             ccceeeecCCCccccccccChhHHHHHHHhhc---------------------ccccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          195 TKWSHVFFEHPATFDTLAMETKKKEEIKKDLK---------------------KGYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       195 ~~w~~~~~~~p~~f~~~~~~~~~k~~i~~~l~---------------------rg~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      ..|..  -..|.+|+++++.+..++.+...+.                     +++||+||||||||++|+++|++++++
T Consensus        27 ~lW~e--kyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~  104 (516)
T 1sxj_A           27 KLWTV--KYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYD  104 (516)
T ss_dssp             CCHHH--HTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCE
T ss_pred             CCccc--ccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            35652  3568899999999999998888771                     579999999999999999999999999


Q ss_pred             EEEEeccccCChHHHHHHHH-------------h-------ccCCeEEEEecccccccccccccccccccccccccCccc
Q 037859          254 VYDLELTTVQDNSELRSLLI-------------D-------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIE  313 (504)
Q Consensus       254 i~~l~~~~~~~~~~l~~l~~-------------~-------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~  313 (504)
                      ++.++++.......+...+.             .       ...++||||||+|.+..   .                  
T Consensus       105 ~i~in~s~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~---~------------------  163 (516)
T 1sxj_A          105 ILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSG---G------------------  163 (516)
T ss_dssp             EEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCT---T------------------
T ss_pred             EEEEeCCCcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccch---h------------------
Confidence            99999988765544433322             1       14679999999998631   0                  


Q ss_pred             ccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          314 KKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       314 ~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                                 ....+..|++.++..    ...+|+|+++.....++ ++.|  | ...|.|+.|+.+++..++...+
T Consensus       164 -----------~~~~l~~L~~~l~~~----~~~iIli~~~~~~~~l~-~l~~--r-~~~i~f~~~~~~~~~~~L~~i~  222 (516)
T 1sxj_A          164 -----------DRGGVGQLAQFCRKT----STPLILICNERNLPKMR-PFDR--V-CLDIQFRRPDANSIKSRLMTIA  222 (516)
T ss_dssp             -----------STTHHHHHHHHHHHC----SSCEEEEESCTTSSTTG-GGTT--T-SEEEECCCCCHHHHHHHHHHHH
T ss_pred             -----------hHHHHHHHHHHHHhc----CCCEEEEEcCCCCccch-hhHh--c-eEEEEeCCCCHHHHHHHHHHHH
Confidence                       011345555555432    22233333333333443 4544  4 4689999999999998887765

>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=99.55  E-value=8.3e-15  Score=148.73  Aligned_cols=151  Identities=20%  Similarity=0.200  Sum_probs=101.3

Q ss_pred             cCCCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhcCCc------------------------
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLNYD------------------------  253 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~~~------------------------  253 (504)
                      ...|.+|+++++.+..++.+...+    ..++|||||||||||++|+++|+.++..                        
T Consensus        17 ~~~~~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (350)
T 1g8p_A           17 TRPVFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS   96 (350)
T ss_dssp             -CCCCCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSC
T ss_pred             CCCCCCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCccccccccccccccccccccchhhhhc
Confidence            335677999999988777655443    5679999999999999999999998631                        


Q ss_pred             ---------EEEEeccccCChHHH------HHHHHhc-----------cCCeEEEEeccccccccccccccccccccccc
Q 037859          254 ---------VYDLELTTVQDNSEL------RSLLIDT-----------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKE  307 (504)
Q Consensus       254 ---------i~~l~~~~~~~~~~l------~~l~~~~-----------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~  307 (504)
                               ++.+..+  .....+      .+.+...           ..++||||||||.+-                 
T Consensus        97 ~~~~~~~~~~~~~~~~--~~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~-----------------  157 (350)
T 1g8p_A           97 TNVIRKPTPVVDLPLG--VSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLE-----------------  157 (350)
T ss_dssp             CCEEEECCCEEEECTT--CCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSC-----------------
T ss_pred             cccccCCCcccccCCC--cchhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCC-----------------
Confidence                     1111111  111122      2222211           247899999999852                 


Q ss_pred             ccCcccccccccCCCcchhhHHHHHhhhhcCc----cc-----cCCCceEEEEecCCCC-CCChhhhcCCCceeEEEecC
Q 037859          308 EKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL----WS-----ASGEERIIVFTTNYVD-KLDPALIRRGRMDKHIEMSY  377 (504)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~----~~-----~~~~~~ivI~tTN~~e-~Ld~ALlRpGR~d~~I~~~~  377 (504)
                                        ......|+..++.-    ..     .....+++|+|||..+ .++++|++  ||+.++++++
T Consensus       158 ------------------~~~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~--R~~~~~~l~~  217 (350)
T 1g8p_A          158 ------------------DHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLS  217 (350)
T ss_dssp             ------------------HHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCC
T ss_pred             ------------------HHHHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCCCCCCHHHHh--hcceEEEcCC
Confidence                              12345566555421    10     0112578899999755 89999999  9999999999


Q ss_pred             C-CHHHHHHHHHHhc
Q 037859          378 C-CFEAFKVLAKNYL  391 (504)
Q Consensus       378 p-~~e~~~~i~~~~l  391 (504)
                      | +.+.+..|++..+
T Consensus       218 ~~~~~~~~~il~~~~  232 (350)
T 1g8p_A          218 PRDVETRVEVIRRRD  232 (350)
T ss_dssp             CCSHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHH
Confidence            9 6777878887754

>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=99.55  E-value=7.2e-14  Score=141.90  Aligned_cols=154  Identities=19%  Similarity=0.268  Sum_probs=114.2

Q ss_pred             ecCCCccccccccChhHHHHHHHhhc---------ccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHH
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDLK---------KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSL  271 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l~---------rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l  271 (504)
                      ..-.|..|+.+.+.+..++.+-..+.         ..++|+||||||||+|++++|+.++.++...+........++..+
T Consensus        17 ~~lr~~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~~~~~l~~~   96 (334)
T 1in4_A           17 QFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAI   96 (334)
T ss_dssp             CTTSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSHHHHHHH
T ss_pred             HHcCCccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhcCHHHHHHH
Confidence            44578889999988877777666552         559999999999999999999999998877766555556677777


Q ss_pred             HHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc-------cc--
Q 037859          272 LIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW-------SA--  342 (504)
Q Consensus       272 ~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~-------~~--  342 (504)
                      +.....+.|++|||+|.+..   .                                ....|+..+....       ..  
T Consensus        97 ~~~~~~~~v~~iDE~~~l~~---~--------------------------------~~e~L~~~~~~~~~~i~~~~~~~~  141 (334)
T 1in4_A           97 LTSLERGDVLFIDEIHRLNK---A--------------------------------VEELLYSAIEDFQIDIMIGKGPSA  141 (334)
T ss_dssp             HHHCCTTCEEEEETGGGCCH---H--------------------------------HHHHHHHHHHTSCCCC--------
T ss_pred             HHHccCCCEEEEcchhhcCH---H--------------------------------HHHHHHHHHHhcccceeeccCccc
Confidence            76666788999999998631   0                                1111122121100       00  


Q ss_pred             -----CCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          343 -----SGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       343 -----~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                           .-..+.++.+||++..|++++++  ||...+.+++++.+++..+++...
T Consensus       142 ~~i~~~l~~~~li~at~~~~~Ls~~l~s--R~~l~~~Ld~~~~~~l~~iL~~~~  193 (334)
T 1in4_A          142 KSIRIDIQPFTLVGATTRSGLLSSPLRS--RFGIILELDFYTVKELKEIIKRAA  193 (334)
T ss_dssp             -------CCCEEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             ccccccCCCeEEEEecCCcccCCHHHHH--hcCceeeCCCCCHHHHHHHHHHHH
Confidence                 00235677899999999999999  999899999999999999998765

>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=99.54  E-value=5.6e-14  Score=144.82  Aligned_cols=141  Identities=21%  Similarity=0.310  Sum_probs=93.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC--------hHHHHHHHHhc------cCCeEEEEecccccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD--------NSELRSLLIDT------SSKSILVIEDIDCSLDL  292 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~--------~~~l~~l~~~~------~~~~Il~iDeiD~~~~~  292 (504)
                      .++||+||||||||++|+++|+.++.+++.+++..+..        ...+..++...      ..++||||||||.+.. 
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~-  151 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISR-  151 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC---
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCCCEEEecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhh-
Confidence            46999999999999999999999999999999887631        12344555433      2689999999999742 


Q ss_pred             cccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc-----------------cCCCceEEEEecCC
Q 037859          293 TGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS-----------------ASGEERIIVFTTNY  355 (504)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~-----------------~~~~~~ivI~tTN~  355 (504)
                        .+..                  .....+.......+.||..||+..-                 ....++++|+|||.
T Consensus       152 --~~~~------------------~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~  211 (376)
T 1um8_A          152 --LSEN------------------RSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAF  211 (376)
T ss_dssp             --------------------------------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEECC
T ss_pred             --hcCC------------------CceecccchHHHHHHHHHHhhccceecccccccccCCcceEEEecCCeEEEecCCH
Confidence              1100                  0001111223367888888886410                 00133577888772


Q ss_pred             C-----------------------------------------CCCChhhhcCCCceeEEEecCCCHHHHHHHHHHh
Q 037859          356 V-----------------------------------------DKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       356 ~-----------------------------------------e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~  390 (504)
                      .                                         ..+.|+|+.  ||+..|.|+.++.++...|+...
T Consensus       212 ~~l~~~l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~p~l~~--R~~~~i~~~~l~~~~l~~i~~~~  285 (376)
T 1um8_A          212 DGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELIG--RLPVLSTLDSISLEAMVDILQKP  285 (376)
T ss_dssp             TTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHHT--TCCEEEECCCCCHHHHHHHHHSS
T ss_pred             HHHHHHHHHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcCCChHHhc--CCCceeeccCCCHHHHHHHHhhh
Confidence            1                                         135677777  88888899999998888888743

>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=99.54  E-value=1.1e-14  Score=146.96  Aligned_cols=151  Identities=19%  Similarity=0.253  Sum_probs=100.0

Q ss_pred             cCCCccccccc-cChh--HHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHH
Q 037859          202 FEHPATFDTLA-METK--KKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELR  269 (504)
Q Consensus       202 ~~~p~~f~~~~-~~~~--~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~  269 (504)
                      +....+|++++ ++..  ....+...+      .++++||||||||||++++++|+.+   +.+++.+++..+.  ..+.
T Consensus         4 l~~~~~f~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~~--~~~~   81 (324)
T 1l8q_A            4 LNPKYTLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFA--QAMV   81 (324)
T ss_dssp             CCTTCCSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHH--HHHH
T ss_pred             CCCCCCcccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHHH--HHHH
Confidence            44456788876 3222  222222222      2579999999999999999999998   8999999887642  1111


Q ss_pred             ---------HHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          270 ---------SLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       270 ---------~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                               ........+.||||||||.+..   .                              ......++..++...
T Consensus        82 ~~~~~~~~~~~~~~~~~~~vL~iDEi~~l~~---~------------------------------~~~~~~l~~~l~~~~  128 (324)
T 1l8q_A           82 EHLKKGTINEFRNMYKSVDLLLLDDVQFLSG---K------------------------------ERTQIEFFHIFNTLY  128 (324)
T ss_dssp             HHHHHTCHHHHHHHHHTCSEEEEECGGGGTT---C------------------------------HHHHHHHHHHHHHHH
T ss_pred             HHHHcCcHHHHHHHhcCCCEEEEcCcccccC---C------------------------------hHHHHHHHHHHHHHH
Confidence                     1111224589999999998621   0                              012233444444332


Q ss_pred             ccCCCceEEEEecCCCC---CCChhhhcCCCce--eEEEecCCCHHHHHHHHHHhcC
Q 037859          341 SASGEERIIVFTTNYVD---KLDPALIRRGRMD--KHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e---~Ld~ALlRpGR~d--~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .  .+.++|+.++|.+.   .++++|.+  ||+  ..++++. +.+++..+++.++.
T Consensus       129 ~--~~~~iii~~~~~~~~l~~l~~~L~s--R~~~~~~i~l~~-~~~e~~~il~~~~~  180 (324)
T 1l8q_A          129 L--LEKQIILASDRHPQKLDGVSDRLVS--RFEGGILVEIEL-DNKTRFKIIKEKLK  180 (324)
T ss_dssp             H--TTCEEEEEESSCGGGCTTSCHHHHH--HHHTSEEEECCC-CHHHHHHHHHHHHH
T ss_pred             H--CCCeEEEEecCChHHHHHhhhHhhh--cccCceEEEeCC-CHHHHHHHHHHHHH
Confidence            1  23356666666665   68999999  886  7899999 99999999998864

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.54  E-value=3.4e-14  Score=145.50  Aligned_cols=152  Identities=16%  Similarity=0.173  Sum_probs=110.1

Q ss_pred             cccccccChhHHHHHHHhh--------cccccccCCCCCcHHHHHHHHHHhc---------CCcEEEEeccccCCh----
Q 037859          207 TFDTLAMETKKKEEIKKDL--------KKGYLLYGPPGTGKSTMIAAMANFL---------NYDVYDLELTTVQDN----  265 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l--------~rg~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~~~~~----  265 (504)
                      .++.+++.+...+.+...+        +++++|+||||||||++++++++.+         +.+++.+++....+.    
T Consensus        17 ~p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   96 (387)
T 2v1u_A           17 VPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVA   96 (387)
T ss_dssp             CCSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHH
Confidence            3477888888888888776        4569999999999999999999988         788888987754321    


Q ss_pred             ------------------HHH-HHHHH---hccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCc
Q 037859          266 ------------------SEL-RSLLI---DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSK  323 (504)
Q Consensus       266 ------------------~~l-~~l~~---~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  323 (504)
                                        ..+ ..++.   ....++||+|||+|.+...                              .
T Consensus        97 ~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~------------------------------~  146 (387)
T 2v1u_A           97 SAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKR------------------------------P  146 (387)
T ss_dssp             HHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHS------------------------------T
T ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhccc------------------------------C
Confidence                              222 22222   2235789999999986310                              0


Q ss_pred             chhhHHHHHhhhhcCccccCCCceEEEEecCCC---CCCChhhhcCCCcee-EEEecCCCHHHHHHHHHHhcC
Q 037859          324 KSKVTLSGLLNFIDGLWSASGEERIIVFTTNYV---DKLDPALIRRGRMDK-HIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       324 ~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~---e~Ld~ALlRpGR~d~-~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .....+..+++.++....  +..+++|++||.+   +.+++++.+  ||.. .|.|+.++.++...+++.++.
T Consensus       147 ~~~~~l~~l~~~~~~~~~--~~~~~~I~~t~~~~~~~~l~~~l~~--r~~~~~i~l~~l~~~~~~~il~~~~~  215 (387)
T 2v1u_A          147 GGQDLLYRITRINQELGD--RVWVSLVGITNSLGFVENLEPRVKS--SLGEVELVFPPYTAPQLRDILETRAE  215 (387)
T ss_dssp             THHHHHHHHHHGGGCC-------CEEEEECSCSTTSSSSCHHHHT--TTTSEECCBCCCCHHHHHHHHHHHHH
T ss_pred             CCChHHHhHhhchhhcCC--CceEEEEEEECCCchHhhhCHHHHh--cCCCeEEeeCCCCHHHHHHHHHHHHH
Confidence            123456666766654310  3457899999987   789999999  8875 899999999999999988764

>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=99.54  E-value=7.9e-15  Score=140.14  Aligned_cols=153  Identities=13%  Similarity=0.172  Sum_probs=100.9

Q ss_pred             ecCCCccccccccCh---hHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhcC---CcEEEEeccccCChHHHHH
Q 037859          201 FFEHPATFDTLAMET---KKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLN---YDVYDLELTTVQDNSELRS  270 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~---~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~~~l~~  270 (504)
                      ++.++.+|+++++.+   ...+.+...+    ++++||+||||||||++++++|+.+.   .+++.+++..+..  .+..
T Consensus        20 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~--~~~~   97 (242)
T 3bos_A           20 HLPDDETFTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGIHAS--ISTA   97 (242)
T ss_dssp             CCCTTCSTTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGGG--SCGG
T ss_pred             CCCCCCChhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHH--HHHH
Confidence            445557888888632   3344444433    56799999999999999999998874   7788888876532  1222


Q ss_pred             HHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEE
Q 037859          271 LLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIV  350 (504)
Q Consensus       271 l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI  350 (504)
                      .+.....+.+|+|||+|.+..                                 .......|+..++.....  +...+|
T Consensus        98 ~~~~~~~~~vliiDe~~~~~~---------------------------------~~~~~~~l~~~l~~~~~~--~~~~ii  142 (242)
T 3bos_A           98 LLEGLEQFDLICIDDVDAVAG---------------------------------HPLWEEAIFDLYNRVAEQ--KRGSLI  142 (242)
T ss_dssp             GGTTGGGSSEEEEETGGGGTT---------------------------------CHHHHHHHHHHHHHHHHH--CSCEEE
T ss_pred             HHHhccCCCEEEEeccccccC---------------------------------CHHHHHHHHHHHHHHHHc--CCCeEE
Confidence            333345689999999998621                                 001123344444433211  123255


Q ss_pred             EecC-CCC---CCChhhhcCCCce--eEEEecCCCHHHHHHHHHHhcC
Q 037859          351 FTTN-YVD---KLDPALIRRGRMD--KHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       351 ~tTN-~~e---~Ld~ALlRpGR~d--~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      +||| .++   .+++++.+  |+.  ..++++.|+.+++..++..++.
T Consensus       143 ~~~~~~~~~~~~~~~~l~~--r~~~~~~i~l~~~~~~~~~~~l~~~~~  188 (242)
T 3bos_A          143 VSASASPMEAGFVLPDLVS--RMHWGLTYQLQPMMDDEKLAALQRRAA  188 (242)
T ss_dssp             EEESSCTTTTTCCCHHHHH--HHHHSEEEECCCCCGGGHHHHHHHHHH
T ss_pred             EEcCCCHHHHHHhhhhhhh--HhhcCceEEeCCCCHHHHHHHHHHHHH
Confidence            5554 443   46799999  886  8999999999999999988764

>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=99.52  E-value=1.7e-14  Score=163.99  Aligned_cols=153  Identities=17%  Similarity=0.280  Sum_probs=105.2

Q ss_pred             CCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCCh----
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQDN----  265 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~~----  265 (504)
                      .|..|+.+++.++..+.++..+    ++++||+||||||||++++++|+.+          +.+++.++++.+...    
T Consensus       165 r~~~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~~~~  244 (854)
T 1qvr_A          165 AEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYR  244 (854)
T ss_dssp             HTTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC----------
T ss_pred             hcCCCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccCccc
Confidence            4778999999999999998887    5679999999999999999999987          889999998876321    


Q ss_pred             ----HHHHHHHHhc---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          266 ----SELRSLLIDT---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       266 ----~~l~~l~~~~---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                          ..+..++...   ..++||||||+|.+.+   ...                     ..+   .....+.|+..++ 
T Consensus       245 g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~---~~~---------------------~~g---~~~~~~~L~~~l~-  296 (854)
T 1qvr_A          245 GEFEERLKAVIQEVVQSQGEVILFIDELHTVVG---AGK---------------------AEG---AVDAGNMLKPALA-  296 (854)
T ss_dssp             -CHHHHHHHHHHHHHTTCSSEEEEECCC----------------------------------------------HHHHH-
T ss_pred             hHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhc---cCC---------------------ccc---hHHHHHHHHHHHh-
Confidence                3466666554   3679999999999752   110                     000   1112222333332 


Q ss_pred             ccccCCCceEEEEecCCCC----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          339 LWSASGEERIIVFTTNYVD----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       339 ~~~~~~~~~ivI~tTN~~e----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                           .+++.+|++||.++    .+|++|.|  ||+. |.|+.|+.+++..|++.++.
T Consensus       297 -----~~~i~~I~at~~~~~~~~~~d~aL~r--Rf~~-i~l~~p~~~e~~~iL~~~~~  346 (854)
T 1qvr_A          297 -----RGELRLIGATTLDEYREIEKDPALER--RFQP-VYVDEPTVEETISILRGLKE  346 (854)
T ss_dssp             -----TTCCCEEEEECHHHHHHHTTCTTTCS--CCCC-EEECCCCHHHHHHHHHHHHH
T ss_pred             -----CCCeEEEEecCchHHhhhccCHHHHh--CCce-EEeCCCCHHHHHHHHHhhhh
Confidence                 23467888888775    37999999  9985 99999999999999986653

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.52  E-value=1.1e-13  Score=146.92  Aligned_cols=143  Identities=20%  Similarity=0.247  Sum_probs=106.2

Q ss_pred             CCCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccC---Ch
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQ---DN  265 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~---~~  265 (504)
                      ..|..|+.+++.+...+.++..+    +.++||+||||||||++|+++|..+          +.+++.++++...   ..
T Consensus       174 ~r~~~ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~~~~g~~e  253 (468)
T 3pxg_A          174 AKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGEFE  253 (468)
T ss_dssp             TTSSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------C
T ss_pred             HhcCCCCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCccccchHH
Confidence            45778999999999999999888    5579999999999999999999997          7889988886211   12


Q ss_pred             HHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccC
Q 037859          266 SELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS  343 (504)
Q Consensus       266 ~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~  343 (504)
                      ..++.+|...  ..++|||||   .      .                              ....+.|+..|+      
T Consensus       254 ~~~~~~~~~~~~~~~~iLfiD---~------~------------------------------~~a~~~L~~~L~------  288 (468)
T 3pxg_A          254 DRLKKVMDEIRQAGNIILFID---A------A------------------------------IDASNILKPSLA------  288 (468)
T ss_dssp             TTHHHHHHHHHTCCCCEEEEC---C--------------------------------------------CCCTT------
T ss_pred             HHHHHHHHHHHhcCCeEEEEe---C------c------------------------------hhHHHHHHHhhc------
Confidence            3466666554  368999999   1      0                              012234455543      


Q ss_pred             CCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          344 GEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       344 ~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      .+.+.+|+|||..+     .+|++|.|  ||. .|.|+.|+.+++..|++.++..
T Consensus       289 ~g~v~vI~at~~~e~~~~~~~~~al~~--Rf~-~i~v~~p~~e~~~~iL~~~~~~  340 (468)
T 3pxg_A          289 RGELQCIGATTLDEYRKYIEKDAALER--RFQ-PIQVDQPSVDESIQILQGLRDR  340 (468)
T ss_dssp             SSSCEEEEECCTTTTHHHHTTCSHHHH--SEE-EEECCCCCHHHHHHHHHHTTTT
T ss_pred             CCCEEEEecCCHHHHHHHhhcCHHHHH--hCc-cceeCCCCHHHHHHHHHHHHHH
Confidence            24588999999988     68999999  997 5999999999999999988754

>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=99.51  E-value=7e-14  Score=157.02  Aligned_cols=146  Identities=18%  Similarity=0.331  Sum_probs=111.1

Q ss_pred             cccccChhHHHHHHHhhc------------c-cccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCCh----------
Q 037859          209 DTLAMETKKKEEIKKDLK------------K-GYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDN----------  265 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l~------------r-g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~----------  265 (504)
                      +.+++++..++.+...+.            . .+||+||||||||++|+++|+.++.+++.++++.....          
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~~~l~g~~  537 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAP  537 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCC
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhHhhhcCCC
Confidence            457788888877777661            1 48999999999999999999999999999998875321          


Q ss_pred             ---------HHHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhh
Q 037859          266 ---------SELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI  336 (504)
Q Consensus       266 ---------~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~l  336 (504)
                               ..+...+.. ..++||||||||.+                                   ....++.||..|
T Consensus       538 ~g~~g~~~~~~l~~~~~~-~~~~vl~lDEi~~~-----------------------------------~~~~~~~Ll~~l  581 (758)
T 1r6b_X          538 PGYVGFDQGGLLTDAVIK-HPHAVLLLDEIEKA-----------------------------------HPDVFNILLQVM  581 (758)
T ss_dssp             SCSHHHHHTTHHHHHHHH-CSSEEEEEETGGGS-----------------------------------CHHHHHHHHHHH
T ss_pred             CCCcCccccchHHHHHHh-CCCcEEEEeCcccc-----------------------------------CHHHHHHHHHHh
Confidence                     123333332 45799999999985                                   233677888888


Q ss_pred             cCcccc--CC-----CceEEEEecCCCC-------------------------CCChhhhcCCCceeEEEecCCCHHHHH
Q 037859          337 DGLWSA--SG-----EERIIVFTTNYVD-------------------------KLDPALIRRGRMDKHIEMSYCCFEAFK  384 (504)
Q Consensus       337 Dg~~~~--~~-----~~~ivI~tTN~~e-------------------------~Ld~ALlRpGR~d~~I~~~~p~~e~~~  384 (504)
                      |.-.-.  .+     .+.+||+|||...                         .++|+|+.  |||.+|.|+.++.+++.
T Consensus       582 e~~~~~~~~g~~~~~~~~~iI~tsN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~--R~~~~i~~~~l~~~~~~  659 (758)
T 1r6b_X          582 DNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIH  659 (758)
T ss_dssp             HHSEEEETTTEEEECTTEEEEEEECSSCC-----------------CHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHH
T ss_pred             cCcEEEcCCCCEEecCCeEEEEecCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHh--hCCcceeeCCCCHHHHH
Confidence            732110  01     3478999999753                         68899999  99999999999999999


Q ss_pred             HHHHHhcC
Q 037859          385 VLAKNYLD  392 (504)
Q Consensus       385 ~i~~~~l~  392 (504)
                      .|++.++.
T Consensus       660 ~i~~~~l~  667 (758)
T 1r6b_X          660 QVVDKFIV  667 (758)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998874

>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=99.50  E-value=7.3e-14  Score=156.87  Aligned_cols=153  Identities=21%  Similarity=0.311  Sum_probs=111.3

Q ss_pred             CCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCC-----
Q 037859          204 HPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQD-----  264 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~-----  264 (504)
                      .|..|+.+++.+...+.+++.+    ++++||+||||||||++|+++|+.+          +..++.+++..+..     
T Consensus       181 ~~~~~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~  260 (758)
T 1r6b_X          181 RVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYR  260 (758)
T ss_dssp             HTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCS
T ss_pred             hcCCCCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhcccccc
Confidence            4667999999999999998887    5679999999999999999999987          67788887765431     


Q ss_pred             ---hHHHHHHHHhcc--CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc
Q 037859          265 ---NSELRSLLIDTS--SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL  339 (504)
Q Consensus       265 ---~~~l~~l~~~~~--~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~  339 (504)
                         ...++.++....  .++||||||+|.+++   .+.                       .........+.|...++  
T Consensus       261 g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~---~~~-----------------------~~~~~~~~~~~L~~~l~--  312 (758)
T 1r6b_X          261 GDFEKRFKALLKQLEQDTNSILFIDEIHTIIG---AGA-----------------------ASGGQVDAANLIKPLLS--  312 (758)
T ss_dssp             SCHHHHHHHHHHHHSSSSCEEEEETTTTTTTT---SCC-----------------------SSSCHHHHHHHHSSCSS--
T ss_pred             chHHHHHHHHHHHHHhcCCeEEEEechHHHhh---cCC-----------------------CCcchHHHHHHHHHHHh--
Confidence               245677776654  479999999999752   110                       00111222222333332  


Q ss_pred             cccCCCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          340 WSASGEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                          .+++.+|++||.++     .+|++|.|  ||+ .|.|+.|+.+++..|++.+.
T Consensus       313 ----~~~~~~I~at~~~~~~~~~~~d~aL~~--Rf~-~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          313 ----SGKIRVIGSTTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             ----SCCCEEEEEECHHHHHCCCCCTTSSGG--GEE-EEECCCCCHHHHHHHHHHHH
T ss_pred             ----CCCeEEEEEeCchHHhhhhhcCHHHHh--Cce-EEEcCCCCHHHHHHHHHHHH
Confidence                24578888888643     57899999  997 79999999999999988654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.50  E-value=8.7e-14  Score=156.25  Aligned_cols=170  Identities=15%  Similarity=0.257  Sum_probs=118.9

Q ss_pred             ccccccChhHHHHHHHhhc------------c-cccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCCh-----H
Q 037859          208 FDTLAMETKKKEEIKKDLK------------K-GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDN-----S  266 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l~------------r-g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~-----~  266 (504)
                      .+.+++++..++.+...+.            . ++||+||||||||++|+++|..+   +.+++.++++.+...     .
T Consensus       490 ~~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~~~~~~  569 (758)
T 3pxi_A          490 HSRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTSGG  569 (758)
T ss_dssp             HTTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSCCCC--
T ss_pred             hCcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhcccccccccc
Confidence            3567788888888877771            1 49999999999999999999998   688999999876421     2


Q ss_pred             HHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc----
Q 037859          267 ELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA----  342 (504)
Q Consensus       267 ~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~----  342 (504)
                      .+...+. ....+||||||||.+                                   +...++.||..||.-.-.    
T Consensus       570 ~l~~~~~-~~~~~vl~lDEi~~~-----------------------------------~~~~~~~Ll~~le~g~~~~~~g  613 (758)
T 3pxi_A          570 QLTEKVR-RKPYSVVLLDAIEKA-----------------------------------HPDVFNILLQVLEDGRLTDSKG  613 (758)
T ss_dssp             -CHHHHH-HCSSSEEEEECGGGS-----------------------------------CHHHHHHHHHHHHHSBCC----
T ss_pred             hhhHHHH-hCCCeEEEEeCcccc-----------------------------------CHHHHHHHHHHhccCeEEcCCC
Confidence            3333332 245789999999985                                   234677788888752111    


Q ss_pred             ---CCCceEEEEecCCCCC------------CChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCcc
Q 037859          343 ---SGEERIIVFTTNYVDK------------LDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPA  407 (504)
Q Consensus       343 ---~~~~~ivI~tTN~~e~------------Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~  407 (504)
                         ...+.+||+|||.+..            ++|+|+.  |||.+|.|++|+.+++..|++.++..    ....+...-.
T Consensus       614 ~~~~~~~~~iI~ttn~~~~~~~~~~~~~~~~f~p~l~~--Rl~~~i~~~~l~~~~~~~i~~~~l~~----~~~~~~~~~~  687 (758)
T 3pxi_A          614 RTVDFRNTILIMTSNVGASEKDKVMGELKRAFRPEFIN--RIDEIIVFHSLEKKHLTEIVSLMSDQ----LTKRLKEQDL  687 (758)
T ss_dssp             -CCBCTTCEEEEEESSSTTCCHHHHHHHHHHSCHHHHT--TSSEEEECC--CHHHHHHHHHHHHHH----HHHHHHTTTC
T ss_pred             CEeccCCeEEEEeCCCChhhHHHHHHHHHhhCCHHHHh--hCCeEEecCCCCHHHHHHHHHHHHHH----HHHHHHhCCC
Confidence               1234689999997554            7899998  99999999999999999999988732    2222222112


Q ss_pred             CCCCCHHHHHHh
Q 037859          408 ETNMTPADVAEN  419 (504)
Q Consensus       408 ~~~~s~a~i~~~  419 (504)
                      ...++++-+.-+
T Consensus       688 ~~~~~~~a~~~l  699 (758)
T 3pxi_A          688 SIELTDAAKAKV  699 (758)
T ss_dssp             EEEECHHHHHHH
T ss_pred             eEEECHHHHHHH
Confidence            236777665543

>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=99.50  E-value=9.9e-14  Score=141.20  Aligned_cols=176  Identities=14%  Similarity=0.177  Sum_probs=116.6

Q ss_pred             CCCccccccccChhHHHHHHHhh-cc----cccccCCCCCcHHHHHHHHHHhcCC-------------------------
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-KK----GYLLYGPPGTGKSTMIAAMANFLNY-------------------------  252 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-~r----g~LL~GPpGtGKTsla~aiA~~l~~-------------------------  252 (504)
                      .+|.+|+++++++..++.+...+ ..    .+||+||||||||++++++|+.+..                         
T Consensus         8 yrP~~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~   87 (354)
T 1sxj_E            8 YRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNV   87 (354)
T ss_dssp             TCCCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CC
T ss_pred             cCCCCHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeee
Confidence            36899999999999999988877 22    2999999999999999999996411                         


Q ss_pred             ----cEEEEeccccC--ChHHHHHHHHh----------------ccCCeEEEEecccccccccccccccccccccccccC
Q 037859          253 ----DVYDLELTTVQ--DNSELRSLLID----------------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKN  310 (504)
Q Consensus       253 ----~i~~l~~~~~~--~~~~l~~l~~~----------------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~  310 (504)
                          +++.++.....  ....++..+..                ...+.|++|||+|.+ +                   
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L-~-------------------  147 (354)
T 1sxj_E           88 VSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSL-T-------------------  147 (354)
T ss_dssp             EECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSS-C-------------------
T ss_pred             ecccceEEecHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCcccc-C-------------------
Confidence                12333332221  11124444332                225679999999984 1                   


Q ss_pred             cccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHh
Q 037859          311 PIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~  390 (504)
                                     ....+.|+..|+..    ..+..+|++||.++.+.+++.+  |+ ..+.|+.|+.+++..+++..
T Consensus       148 ---------------~~~~~~L~~~le~~----~~~~~~Il~t~~~~~l~~~l~s--R~-~~~~~~~~~~~~~~~~l~~~  205 (354)
T 1sxj_E          148 ---------------KDAQAALRRTMEKY----SKNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPAPSDSEISTILSDV  205 (354)
T ss_dssp             ---------------HHHHHHHHHHHHHS----TTTEEEEEEESCSCSSCHHHHT--TS-EEEECCCCCHHHHHHHHHHH
T ss_pred             ---------------HHHHHHHHHHHHhh----cCCCEEEEEeCCHHHHHHHHHh--hc-eEEecCCcCHHHHHHHHHHH
Confidence                           12345566666543    2347889999999999999999  88 78999999999999999877


Q ss_pred             cCcCCcch--HHHHhcCccCCCCCHHHHHHhh
Q 037859          391 LDIDSHEL--YAVIESMPAETNMTPADVAENL  420 (504)
Q Consensus       391 l~~~~~~~--~~~i~~l~~~~~~s~a~i~~~l  420 (504)
                      +.......  .+.++.++...+=+++++...+
T Consensus       206 ~~~~~~~~~~~~~l~~i~~~~~G~~r~a~~~l  237 (354)
T 1sxj_E          206 VTNERIQLETKDILKRIAQASNGNLRVSLLML  237 (354)
T ss_dssp             HHHHTCEECCSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHcCCCCCcHHHHHHHHHHcCCCHHHHHHHH
Confidence            64322111  1223333333344555554443

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.49  E-value=1.2e-13  Score=138.92  Aligned_cols=127  Identities=11%  Similarity=0.159  Sum_probs=94.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCC----------------------hHHHHHHHH
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQD----------------------NSELRSLLI  273 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~----------------------~~~l~~l~~  273 (504)
                      +.++|||||||||||++++++++++          ++.++.++|..+.+                      ...|.++|.
T Consensus        45 ~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f~  124 (318)
T 3te6_A           45 NKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKENLCGDISLEALNFYIT  124 (318)
T ss_dssp             CCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC--CCCCHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCCCCchHHHHHHHHHHH
Confidence            6779999999999999999999998          35677888765432                      234566666


Q ss_pred             hc----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEE
Q 037859          274 DT----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERII  349 (504)
Q Consensus       274 ~~----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~iv  349 (504)
                      ..    ..++||+|||||.+.                                  .+..+..|++...    .....++|
T Consensus       125 ~~~~~~~~~~ii~lDE~d~l~----------------------------------~q~~L~~l~~~~~----~~~s~~~v  166 (318)
T 3te6_A          125 NVPKAKKRKTLILIQNPENLL----------------------------------SEKILQYFEKWIS----SKNSKLSI  166 (318)
T ss_dssp             HSCGGGSCEEEEEEECCSSSC----------------------------------CTHHHHHHHHHHH----CSSCCEEE
T ss_pred             HhhhccCCceEEEEecHHHhh----------------------------------cchHHHHHHhccc----ccCCcEEE
Confidence            53    357899999999973                                  1235555665432    12345789


Q ss_pred             EEecCCCCC----CChhhhcCCCce-eEEEecCCCHHHHHHHHHHhcC
Q 037859          350 VFTTNYVDK----LDPALIRRGRMD-KHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       350 I~tTN~~e~----Ld~ALlRpGR~d-~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      |+++|..+.    |++++.+  ||+ ..|.|+.++.++...|+++.+.
T Consensus       167 I~i~n~~d~~~~~L~~~v~S--R~~~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          167 ICVGGHNVTIREQINIMPSL--KAHFTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             EEECCSSCCCHHHHHTCHHH--HTTEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             EEEecCcccchhhcchhhhc--cCCceEEEeCCCCHHHHHHHHHHHHH
Confidence            999998875    4556677  886 5899999999999999988764

>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=99.48  E-value=5e-13  Score=135.68  Aligned_cols=150  Identities=13%  Similarity=0.147  Sum_probs=107.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCC------------------------cEEEEecc---ccCChHHHHHHHHhc---
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DVYDLELT---TVQDNSELRSLLIDT---  275 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i~~l~~~---~~~~~~~l~~l~~~~---  275 (504)
                      +.+||||||||||||++|+++|+.+..                        +++.++..   .-...+.++.++...   
T Consensus        24 ~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir~l~~~~~~~  103 (334)
T 1a5t_A           24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEH  103 (334)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTSC
T ss_pred             ceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHHHHHHHHhhc
Confidence            566999999999999999999998753                        35566553   222445677766554   


Q ss_pred             ---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEe
Q 037859          276 ---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFT  352 (504)
Q Consensus       276 ---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~t  352 (504)
                         ..+.|++|||+|.+-                                   ....+.||..++.-    +...++|++
T Consensus       104 ~~~~~~kvviIdead~l~-----------------------------------~~a~naLLk~lEep----~~~~~~Il~  144 (334)
T 1a5t_A          104 ARLGGAKVVWVTDAALLT-----------------------------------DAAANALLKTLEEP----PAETWFFLA  144 (334)
T ss_dssp             CTTSSCEEEEESCGGGBC-----------------------------------HHHHHHHHHHHTSC----CTTEEEEEE
T ss_pred             cccCCcEEEEECchhhcC-----------------------------------HHHHHHHHHHhcCC----CCCeEEEEE
Confidence               246899999999861                                   22467788888753    345788999


Q ss_pred             cCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCCCCCHHHHHHhhC
Q 037859          353 TNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAENLM  421 (504)
Q Consensus       353 TN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~~~s~a~i~~~l~  421 (504)
                      ||.++.++|++++  |+ ..+.|+.|+.++...+++.....+    .+.+..++...+=++..+...+.
T Consensus       145 t~~~~~l~~ti~S--Rc-~~~~~~~~~~~~~~~~L~~~~~~~----~~~~~~l~~~s~G~~r~a~~~l~  206 (334)
T 1a5t_A          145 TREPERLLATLRS--RC-RLHYLAPPPEQYAVTWLSREVTMS----QDALLAALRLSAGSPGAALALFQ  206 (334)
T ss_dssp             ESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHCCCC----HHHHHHHHHHTTTCHHHHHHTTS
T ss_pred             eCChHhCcHHHhh--cc-eeeeCCCCCHHHHHHHHHHhcCCC----HHHHHHHHHHcCCCHHHHHHHhc
Confidence            9999999999999  88 579999999999999888776322    12223333334556666655443

>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=99.48  E-value=1.3e-13  Score=134.92  Aligned_cols=148  Identities=16%  Similarity=0.188  Sum_probs=95.7

Q ss_pred             ccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhcC---CcEEEEeccccCChHHHHH-HHH--
Q 037859          206 ATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFLN---YDVYDLELTTVQDNSELRS-LLI--  273 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~~~l~~-l~~--  273 (504)
                      .+|+.+++.....+.+++.+      +.++||+||||||||++|+++++.+.   .+++.++++.+.. ..+.. +|.  
T Consensus         3 ~~f~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~-~~~~~~l~g~~   81 (265)
T 2bjv_A            3 EYKDNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNE-NLLDSELFGHE   81 (265)
T ss_dssp             -------CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCH-HHHHHHHHCCC
T ss_pred             cccccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCCh-hHHHHHhcCCc
Confidence            36888888888877777655      67799999999999999999999885   6899999988742 22222 221  


Q ss_pred             ---------------hccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC
Q 037859          274 ---------------DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG  338 (504)
Q Consensus       274 ---------------~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg  338 (504)
                                     ....+++|||||||.+-                                   ......|+..++.
T Consensus        82 ~~~~~g~~~~~~~~l~~a~~~~l~lDEi~~l~-----------------------------------~~~q~~Ll~~l~~  126 (265)
T 2bjv_A           82 AGAFTGAQKRHPGRFERADGGTLFLDELATAP-----------------------------------MMVQEKLLRVIEY  126 (265)
T ss_dssp             ---------CCCCHHHHTTTSEEEEESGGGSC-----------------------------------HHHHHHHHHHHHH
T ss_pred             ccccccccccccchhhhcCCcEEEEechHhcC-----------------------------------HHHHHHHHHHHHh
Confidence                           11346899999999862                                   1234455555542


Q ss_pred             cc-------ccCCCceEEEEecCCC-------CCCChhhhcCCCce-eEEEecCCCH--HHHHHHHHHhc
Q 037859          339 LW-------SASGEERIIVFTTNYV-------DKLDPALIRRGRMD-KHIEMSYCCF--EAFKVLAKNYL  391 (504)
Q Consensus       339 ~~-------~~~~~~~ivI~tTN~~-------e~Ld~ALlRpGR~d-~~I~~~~p~~--e~~~~i~~~~l  391 (504)
                      -.       ......+.+|+|||..       ..++++|.+  ||+ ..|.++..+.  ++...+++.++
T Consensus       127 ~~~~~~g~~~~~~~~~~iI~atn~~~~~~~~~~~~~~~L~~--Rl~~~~i~lp~L~~R~~di~~l~~~~l  194 (265)
T 2bjv_A          127 GELERVGGSQPLQVNVRLVCATNADLPAMVNEGTFRADLLD--ALAFDVVQLPPLRERESDIMLMAEYFA  194 (265)
T ss_dssp             CEECCCCC--CEECCCEEEEEESSCHHHHHHHTSSCHHHHH--HHCSEEEECCCGGGCHHHHHHHHHHHH
T ss_pred             CCeecCCCcccccCCeEEEEecCcCHHHHHHcCCccHHHHH--hhcCcEEeCCChhhhhHHHHHHHHHHH
Confidence            11       0011346789999974       357899999  996 4566665543  56667777765

>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=99.48  E-value=2e-13  Score=138.77  Aligned_cols=147  Identities=24%  Similarity=0.380  Sum_probs=110.0

Q ss_pred             CCCccccccccChhHHHHHHHhhccc----ccccCCCCCcHHHHHHHHHHhcCC-----cEEEEeccccCChHHHHHHHH
Q 037859          203 EHPATFDTLAMETKKKEEIKKDLKKG----YLLYGPPGTGKSTMIAAMANFLNY-----DVYDLELTTVQDNSELRSLLI  273 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l~rg----~LL~GPpGtGKTsla~aiA~~l~~-----~i~~l~~~~~~~~~~l~~l~~  273 (504)
                      ..|..|+.+.+++..++.+...+..|    ||||||||||||++++++|+.+..     .+..++.+...+...++..+.
T Consensus        19 ~rp~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~~~ir~~i~   98 (340)
T 1sxj_C           19 YRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIK   98 (340)
T ss_dssp             TCCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHH
T ss_pred             hCCCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccHHHHHHHHH
Confidence            46889999999998888888877322    899999999999999999998743     366666665444445554432


Q ss_pred             h---c-----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCC
Q 037859          274 D---T-----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGE  345 (504)
Q Consensus       274 ~---~-----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~  345 (504)
                      .   .     ..+.|++|||+|.+-                                   ....+.|+..++..    ..
T Consensus        99 ~~~~~~~~~~~~~~viiiDe~~~l~-----------------------------------~~~~~~L~~~le~~----~~  139 (340)
T 1sxj_C           99 DFASTRQIFSKGFKLIILDEADAMT-----------------------------------NAAQNALRRVIERY----TK  139 (340)
T ss_dssp             HHHHBCCSSSCSCEEEEETTGGGSC-----------------------------------HHHHHHHHHHHHHT----TT
T ss_pred             HHHhhcccCCCCceEEEEeCCCCCC-----------------------------------HHHHHHHHHHHhcC----CC
Confidence            2   1     247899999999851                                   12345566666643    23


Q ss_pred             ceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          346 ERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       346 ~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      ...+|++||.+..+.|++.+  |+. .+.|..++.++...++...+
T Consensus       140 ~~~~il~~n~~~~i~~~i~s--R~~-~~~~~~l~~~~~~~~l~~~~  182 (340)
T 1sxj_C          140 NTRFCVLANYAHKLTPALLS--QCT-RFRFQPLPQEAIERRIANVL  182 (340)
T ss_dssp             TEEEEEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHH
T ss_pred             CeEEEEEecCccccchhHHh--hce-eEeccCCCHHHHHHHHHHHH
Confidence            46788889999999999999  885 78999999888888777665

>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=99.48  E-value=9.2e-14  Score=142.71  Aligned_cols=143  Identities=15%  Similarity=0.250  Sum_probs=105.3

Q ss_pred             cccccChhHHHHHHHhh--------cccccccCCCCCcHHHHHHHHHHhc-----------CCcEEEEeccccC-Ch---
Q 037859          209 DTLAMETKKKEEIKKDL--------KKGYLLYGPPGTGKSTMIAAMANFL-----------NYDVYDLELTTVQ-DN---  265 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l--------~rg~LL~GPpGtGKTsla~aiA~~l-----------~~~i~~l~~~~~~-~~---  265 (504)
                      +.+++.+...+.+...+        +++++|+||||||||++++++++.+           +.+++.+++.... +.   
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   99 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAV   99 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHH
Confidence            67888888888777665        4569999999999999999999987           8899999876543 21   


Q ss_pred             --------------------HH-HHHHHHhcc-CCeEEEEecccccccccccccccccccccccccCcccccccccCCCc
Q 037859          266 --------------------SE-LRSLLIDTS-SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSK  323 (504)
Q Consensus       266 --------------------~~-l~~l~~~~~-~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  323 (504)
                                          .. +..++.... .+.||+|||+|.+..   .                            
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~---~----------------------------  148 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVK---R----------------------------  148 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHH---S----------------------------
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhcc---C----------------------------
Confidence                                11 222222222 234999999998631   0                            


Q ss_pred             chhhH-HHHHhhhhcCccccCCCceEEEEecCCC---CCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          324 KSKVT-LSGLLNFIDGLWSASGEERIIVFTTNYV---DKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       324 ~~~~~-ls~lL~~lDg~~~~~~~~~ivI~tTN~~---e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ..... +..|+...        ..+.+|+|||..   +.+++++.+  ||...|.|+.++.++...+++.++.
T Consensus       149 ~~~~~~l~~l~~~~--------~~~~iI~~t~~~~~~~~l~~~l~s--r~~~~i~l~~l~~~~~~~il~~~~~  211 (384)
T 2qby_B          149 RGGDIVLYQLLRSD--------ANISVIMISNDINVRDYMEPRVLS--SLGPSVIFKPYDAEQLKFILSKYAE  211 (384)
T ss_dssp             TTSHHHHHHHHTSS--------SCEEEEEECSSTTTTTTSCHHHHH--TCCCEEEECCCCHHHHHHHHHHHHH
T ss_pred             CCCceeHHHHhcCC--------cceEEEEEECCCchHhhhCHHHHh--cCCCeEEECCCCHHHHHHHHHHHHH
Confidence            00123 55555543        347899999987   789999999  9877999999999999999998763

>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=99.48  E-value=7.4e-14  Score=147.14  Aligned_cols=153  Identities=16%  Similarity=0.246  Sum_probs=99.5

Q ss_pred             ecCCCccccccc-cChhH--HHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhc-----CCcEEEEeccccCChHH
Q 037859          201 FFEHPATFDTLA-METKK--KEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTVQDNSE  267 (504)
Q Consensus       201 ~~~~p~~f~~~~-~~~~~--k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~~~  267 (504)
                      ++....+|++++ ++...  ...+....     ..+++||||||||||+|++++|+++     +.+++.+++..+.  .+
T Consensus        97 ~l~~~~tfd~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~--~~  174 (440)
T 2z4s_A           97 PLNPDYTFENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFL--ND  174 (440)
T ss_dssp             CCCTTCSGGGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHH--HH
T ss_pred             CCCCCCChhhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHH--HH
Confidence            344445788877 43322  22222222     2469999999999999999999988     8889988876642  12


Q ss_pred             HHHH---------HHhcc-CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhc
Q 037859          268 LRSL---------LIDTS-SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID  337 (504)
Q Consensus       268 l~~l---------~~~~~-~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD  337 (504)
                      +...         ..... .+.||||||+|.+..   .                              ......|+..++
T Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~vL~IDEi~~l~~---~------------------------------~~~q~~l~~~l~  221 (440)
T 2z4s_A          175 LVDSMKEGKLNEFREKYRKKVDILLIDDVQFLIG---K------------------------------TGVQTELFHTFN  221 (440)
T ss_dssp             HHHHHHTTCHHHHHHHHTTTCSEEEEECGGGGSS---C------------------------------HHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHhcCCCCEEEEeCcccccC---C------------------------------hHHHHHHHHHHH
Confidence            2211         12224 689999999998631   0                              012333444444


Q ss_pred             CccccCCCceEEEEecCCCCC---CChhhhcCCCce--eEEEecCCCHHHHHHHHHHhcC
Q 037859          338 GLWSASGEERIIVFTTNYVDK---LDPALIRRGRMD--KHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       338 g~~~~~~~~~ivI~tTN~~e~---Ld~ALlRpGR~d--~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .+..  .+..+||.|.+.+..   ++++|++  ||+  ..+.++.|+.+++..+++.++.
T Consensus       222 ~l~~--~~~~iIitt~~~~~~l~~l~~~L~s--R~~~g~~i~l~~p~~e~r~~iL~~~~~  277 (440)
T 2z4s_A          222 ELHD--SGKQIVICSDREPQKLSEFQDRLVS--RFQMGLVAKLEPPDEETRKSIARKMLE  277 (440)
T ss_dssp             HHHT--TTCEEEEEESSCGGGCSSCCHHHHH--HHHSSBCCBCCCCCHHHHHHHHHHHHH
T ss_pred             HHHH--CCCeEEEEECCCHHHHHHHHHHHHh--hccCCeEEEeCCCCHHHHHHHHHHHHH
Confidence            3321  223455544444443   8999999  886  7899999999999999988763

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.46  E-value=1.5e-13  Score=154.42  Aligned_cols=143  Identities=20%  Similarity=0.255  Sum_probs=106.9

Q ss_pred             CCCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEecccc-C--Ch
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTV-Q--DN  265 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~-~--~~  265 (504)
                      ..|..|+.+++.+..++.++..+    +.++|||||||||||++|+++|+.+          +.+++.+++..- .  ..
T Consensus       174 ~~~~~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~~~~G~~e  253 (758)
T 3pxi_A          174 AKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGEFE  253 (758)
T ss_dssp             TTSSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------C
T ss_pred             HhhCCCCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecccccccchHH
Confidence            45678999999999999999888    5679999999999999999999997          888888887221 1  12


Q ss_pred             HHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccC
Q 037859          266 SELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS  343 (504)
Q Consensus       266 ~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~  343 (504)
                      ..++.+|...  ..++|||||   .      .                              ....+.|+..++      
T Consensus       254 ~~l~~~~~~~~~~~~~iLfiD---~------~------------------------------~~~~~~L~~~l~------  288 (758)
T 3pxi_A          254 DRLKKVMDEIRQAGNIILFID---A------A------------------------------IDASNILKPSLA------  288 (758)
T ss_dssp             TTHHHHHHHHHTCCCCEEEEC---C--------------------------------------------CCCTT------
T ss_pred             HHHHHHHHHHHhcCCEEEEEc---C------c------------------------------hhHHHHHHHHHh------
Confidence            3566777654  368999999   1      0                              012334455544      


Q ss_pred             CCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          344 GEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       344 ~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      .+.+.+|+|||..+     .+||||.|  ||. .|.|+.|+.+++..|++.+...
T Consensus       289 ~~~v~~I~at~~~~~~~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~il~~~~~~  340 (758)
T 3pxi_A          289 RGELQCIGATTLDEYRKYIEKDAALER--RFQ-PIQVDQPSVDESIQILQGLRDR  340 (758)
T ss_dssp             SSSCEEEEECCTTTTHHHHTTCSHHHH--SEE-EEECCCCCHHHHHHHHHHTTTT
T ss_pred             cCCEEEEeCCChHHHHHHhhccHHHHh--hCc-EEEeCCCCHHHHHHHHHHHHHH
Confidence            34588999999988     69999999  995 6999999999999999977653

>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=99.45  E-value=3.7e-13  Score=137.61  Aligned_cols=150  Identities=19%  Similarity=0.253  Sum_probs=108.8

Q ss_pred             cccccccChhHHHHHHHhh--------cccccccCCCCCcHHHHHHHHHHhc------CCcEEEEeccccCC--------
Q 037859          207 TFDTLAMETKKKEEIKKDL--------KKGYLLYGPPGTGKSTMIAAMANFL------NYDVYDLELTTVQD--------  264 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l--------~rg~LL~GPpGtGKTsla~aiA~~l------~~~i~~l~~~~~~~--------  264 (504)
                      .++.+++.+...+.+...+        ++.++|+||||||||++++++++.+      +.+++.+++....+        
T Consensus        18 ~p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i   97 (386)
T 2qby_A           18 IPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADL   97 (386)
T ss_dssp             CCSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHH
Confidence            3467888888888887776        3469999999999999999999988      88888888653211        


Q ss_pred             --------------hHHH----HHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchh
Q 037859          265 --------------NSEL----RSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSK  326 (504)
Q Consensus       265 --------------~~~l----~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  326 (504)
                                    ...+    ...+.....++||+|||+|.+.+..                               ..
T Consensus        98 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~-------------------------------~~  146 (386)
T 2qby_A           98 LESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKY-------------------------------ND  146 (386)
T ss_dssp             TTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSS-------------------------------CS
T ss_pred             HHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccC-------------------------------cC
Confidence                          2222    2222333458999999999874200                               12


Q ss_pred             hHHHHHhhhhcCccccCCCceEEEEecCCC---CCCChhhhcCCCce-eEEEecCCCHHHHHHHHHHhcC
Q 037859          327 VTLSGLLNFIDGLWSASGEERIIVFTTNYV---DKLDPALIRRGRMD-KHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       327 ~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~---e~Ld~ALlRpGR~d-~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ..+..|+..++..   .+..+.+|++||.+   +.+++++.+  ||. ..|.++.++.++...++..++.
T Consensus       147 ~~l~~l~~~~~~~---~~~~~~~I~~~~~~~~~~~~~~~~~~--r~~~~~i~l~~l~~~~~~~il~~~~~  211 (386)
T 2qby_A          147 DILYKLSRINSEV---NKSKISFIGITNDVKFVDLLDPRVKS--SLSEEEIIFPPYNAEELEDILTKRAQ  211 (386)
T ss_dssp             THHHHHHHHHHSC---CC--EEEEEEESCGGGGGGCTTHHHH--TTTTEEEEECCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhchhhc---CCCeEEEEEEECCCChHhhhCHHHhc--cCCCeeEEeCCCCHHHHHHHHHHHHH
Confidence            3567777777654   23457889999877   578899998  775 4899999999999999987653

>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=99.45  E-value=5.8e-13  Score=136.68  Aligned_cols=148  Identities=16%  Similarity=0.124  Sum_probs=108.4

Q ss_pred             ccccccChhHHHHHHHhh--------cc--cccccCCCCCcHHHHHHHHHHhc----CCcEEEEeccccCChHH------
Q 037859          208 FDTLAMETKKKEEIKKDL--------KK--GYLLYGPPGTGKSTMIAAMANFL----NYDVYDLELTTVQDNSE------  267 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l--------~r--g~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~~~~~~~------  267 (504)
                      ++.+++.+...+.+...+        +.  .++|+||||||||++++++++.+    +..++.+++....+...      
T Consensus        16 p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~   95 (389)
T 1fnn_A           16 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIA   95 (389)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHHHHH
Confidence            367888888888887777        23  69999999999999999999998    67788888765432211      


Q ss_pred             --------------------HHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhh
Q 037859          268 --------------------LRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV  327 (504)
Q Consensus       268 --------------------l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  327 (504)
                                          +...+.....+.||+|||+|.+                                   ...
T Consensus        96 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l-----------------------------------~~~  140 (389)
T 1fnn_A           96 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNL-----------------------------------APD  140 (389)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGS-----------------------------------CHH
T ss_pred             HHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECcccc-----------------------------------chH
Confidence                                1122222346889999999985                                   123


Q ss_pred             HHHHHhhhhcCccccCCCceEEEEecCCC---CCCChhhhcCCCcee-EEEecCCCHHHHHHHHHHhcC
Q 037859          328 TLSGLLNFIDGLWSASGEERIIVFTTNYV---DKLDPALIRRGRMDK-HIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       328 ~ls~lL~~lDg~~~~~~~~~ivI~tTN~~---e~Ld~ALlRpGR~d~-~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .+..|+..++.........+.+|++||.+   +.+++.+.+  ||.. .|.|+.++.++...++...+.
T Consensus       141 ~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l~~~~~~--r~~~~~i~~~pl~~~~~~~~l~~~~~  207 (389)
T 1fnn_A          141 ILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRG--IMGKYVIRFSPYTKDQIFDILLDRAK  207 (389)
T ss_dssp             HHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCHHHHH--HHTTCEEECCCCBHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHhCHHhhh--cCCCceEEeCCCCHHHHHHHHHHHHH
Confidence            56666666654421111357888999988   778999998  8865 899999999999999887764

>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=99.44  E-value=7.9e-13  Score=162.83  Aligned_cols=156  Identities=22%  Similarity=0.347  Sum_probs=108.6

Q ss_pred             cccccccChhHHH---HHHHhh---cccccccCCCCCcHHHHH-HHHHHhcCCcEEEEeccccCChHHHHHHHHhc----
Q 037859          207 TFDTLAMETKKKE---EIKKDL---KKGYLLYGPPGTGKSTMI-AAMANFLNYDVYDLELTTVQDNSELRSLLIDT----  275 (504)
Q Consensus       207 ~f~~~~~~~~~k~---~i~~~l---~rg~LL~GPpGtGKTsla-~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~----  275 (504)
                      .|.++..+...-.   .+++.+   ++++||+||||||||++| +++++..++.++.++++...+...+.+.+...    
T Consensus      1242 ~~~~iiVpT~DT~R~~~ll~~~l~~~~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infsa~ts~~~~~~~i~~~~~~~ 1321 (2695)
T 4akg_A         1242 MRPDIVIPTIDTIKHEKIFYDLLNSKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYV 1321 (2695)
T ss_dssp             SCSSCCCCCHHHHHHHHHHHHHHHHTCEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECCTTCCHHHHHHHHHHHBCCE
T ss_pred             CccceeEeccchHHHHHHHHHHHHCCCeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEeecCCCHHHHHHHHHHHhhhc
Confidence            4556555543222   233333   789999999999999999 55666668889999999988888887776542    


Q ss_pred             -------------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc
Q 037859          276 -------------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA  342 (504)
Q Consensus       276 -------------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~  342 (504)
                                   ..++||||||||..-     .                     +..+.......+.+++. ..|++..
T Consensus      1322 ~~~~g~~~~P~~~gk~~VlFiDEinmp~-----~---------------------d~yg~q~~lelLRq~le-~gg~yd~ 1374 (2695)
T 4akg_A         1322 TTSKGLTLLPKSDIKNLVLFCDEINLPK-----L---------------------DKYGSQNVVLFLRQLME-KQGFWKT 1374 (2695)
T ss_dssp             EETTTEEEEEBSSSSCEEEEEETTTCSC-----C---------------------CSSSCCHHHHHHHHHHH-TSSEECT
T ss_pred             cccCCccccCCCCCceEEEEeccccccc-----c---------------------cccCchhHHHHHHHHHh-cCCEEEc
Confidence                         135799999999721     0                     01122223334445442 2344432


Q ss_pred             CC------CceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          343 SG------EERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       343 ~~------~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ..      .++.+|+|||++.     .|||+|+|  || ..|.+++|+.++++.|++.++.
T Consensus      1375 ~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllR--rf-~vi~i~~P~~~~l~~I~~~il~ 1432 (2695)
T 4akg_A         1375 PENKWVTIERIHIVGACNPPTDPGRIPMSERFTR--HA-AILYLGYPSGKSLSQIYEIYYK 1432 (2695)
T ss_dssp             TTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHT--TE-EEEECCCCTTTHHHHHHHHHHH
T ss_pred             CCCcEEEecCEEEEEecCCCccCCCccCChhhhh--ee-eEEEeCCCCHHHHHHHHHHHHH
Confidence            11      2478999999995     79999999  99 7899999999999999987763

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.43  E-value=8.5e-13  Score=140.63  Aligned_cols=143  Identities=17%  Similarity=0.138  Sum_probs=95.4

Q ss_pred             cccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcCC--cEEEEeccccCChHHH-----------HHHHHhc
Q 037859          211 LAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLNY--DVYDLELTTVQDNSEL-----------RSLLIDT  275 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l~~~~~~~~~~l-----------~~l~~~~  275 (504)
                      +++.++.++.+...+  +.++||+||||||||++|+++|+.++.  ++..+.+.. .+.+++           ...|...
T Consensus        24 ivGq~~~i~~l~~al~~~~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~-~t~~dL~G~~~~~~~~~~g~~~~~  102 (500)
T 3nbx_X           24 LYERSHAIRLCLLAALSGESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRF-STPEEVFGPLSIQALKDEGRYERL  102 (500)
T ss_dssp             CSSCHHHHHHHHHHHHHTCEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTT-CCHHHHHCCBC----------CBC
T ss_pred             hHHHHHHHHHHHHHHhcCCeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhc-CCHHHhcCcccHHHHhhchhHHhh
Confidence            556777777777666  677999999999999999999999854  444444432 111211           1222211


Q ss_pred             -----cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhc-------CccccC
Q 037859          276 -----SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID-------GLWSAS  343 (504)
Q Consensus       276 -----~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD-------g~~~~~  343 (504)
                           +.++|||||||+.+                                   +..+.+.||..|+       |.... 
T Consensus       103 ~~g~l~~~~IL~IDEI~r~-----------------------------------~~~~q~~LL~~lee~~v~i~G~~~~-  146 (500)
T 3nbx_X          103 TSGYLPEAEIVFLDEIWKA-----------------------------------GPAILNTLLTAINERQFRNGAHVEK-  146 (500)
T ss_dssp             CTTSGGGCSEEEEESGGGC-----------------------------------CHHHHHHHHHHHHSSEEECSSSEEE-
T ss_pred             hccCCCcceeeeHHhHhhh-----------------------------------cHHHHHHHHHHHHHHhccCCCCcCC-
Confidence                 14579999999874                                   1235667777774       22111 


Q ss_pred             CCceEEEEecCCCC---CCChhhhcCCCceeEEEecCCCH-HHHHHHHHHhcC
Q 037859          344 GEERIIVFTTNYVD---KLDPALIRRGRMDKHIEMSYCCF-EAFKVLAKNYLD  392 (504)
Q Consensus       344 ~~~~ivI~tTN~~e---~Ld~ALlRpGR~d~~I~~~~p~~-e~~~~i~~~~l~  392 (504)
                      -..+++|+|||...   .+.+|+++  ||..+|.+++|+. +++..|++....
T Consensus       147 ~~~~~iI~ATN~lpe~~~~~~aLld--RF~~~i~v~~p~~~ee~~~IL~~~~~  197 (500)
T 3nbx_X          147 IPMRLLVAASNELPEADSSLEALYD--RMLIRLWLDKVQDKANFRSMLTSQQD  197 (500)
T ss_dssp             CCCCEEEEEESSCCCTTCTTHHHHT--TCCEEEECCSCCCHHHHHHHHTCCCC
T ss_pred             cchhhhhhccccCCCccccHHHHHH--HHHHHHHHHHhhhhhhHHHHHhcccc
Confidence            12346788888632   24469999  9999999999987 778888887653

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.40  E-value=3e-13  Score=120.49  Aligned_cols=77  Identities=19%  Similarity=0.267  Sum_probs=58.6

Q ss_pred             cccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHHHHhccCCeEE
Q 037859          211 LAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSLLIDTSSKSIL  281 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il  281 (504)
                      +++.....+++.+.+      ...+||+||||||||++|+++++..   +.+++ +++..+.....+...+..+ .+++|
T Consensus         3 iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~~~~~~~~~~a-~~g~l   80 (145)
T 3n70_A            3 LIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNAPQLNDFIALA-QGGTL   80 (145)
T ss_dssp             -CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTSSCHHHHHHHH-TTSCE
T ss_pred             ceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcchhhhcHHHHc-CCcEE
Confidence            344555555555554      5679999999999999999999987   77888 9999876555555555544 56899


Q ss_pred             EEeccccc
Q 037859          282 VIEDIDCS  289 (504)
Q Consensus       282 ~iDeiD~~  289 (504)
                      ||||||.+
T Consensus        81 ~ldei~~l   88 (145)
T 3n70_A           81 VLSHPEHL   88 (145)
T ss_dssp             EEECGGGS
T ss_pred             EEcChHHC
Confidence            99999986

>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=99.36  E-value=2.6e-12  Score=128.75  Aligned_cols=131  Identities=15%  Similarity=0.214  Sum_probs=99.1

Q ss_pred             HHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc------CCcEEEEeccc-cCChHHHHHHHHhcc------CCe
Q 037859          217 KKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL------NYDVYDLELTT-VQDNSELRSLLIDTS------SKS  279 (504)
Q Consensus       217 ~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l------~~~i~~l~~~~-~~~~~~l~~l~~~~~------~~~  279 (504)
                      ..+.+...+    ...||||||||||||++|+++|+.+      ..+++.++... -.+.+.++.++..+.      ...
T Consensus         5 ~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~~p~~~~~k   84 (305)
T 2gno_A            5 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRK   84 (305)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSE
T ss_pred             HHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhhccccCCce
Confidence            344444444    2359999999999999999999863      45788887654 234456777665542      357


Q ss_pred             EEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCC
Q 037859          280 ILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKL  359 (504)
Q Consensus       280 Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~L  359 (504)
                      |++|||+|.+                                   +....+.||..|+..    ++..++|++||.+++|
T Consensus        85 vviIdead~l-----------------------------------t~~a~naLLk~LEep----~~~t~fIl~t~~~~kl  125 (305)
T 2gno_A           85 YVIVHDCERM-----------------------------------TQQAANAFLKALEEP----PEYAVIVLNTRRWHYL  125 (305)
T ss_dssp             EEEETTGGGB-----------------------------------CHHHHHHTHHHHHSC----CTTEEEEEEESCGGGS
T ss_pred             EEEeccHHHh-----------------------------------CHHHHHHHHHHHhCC----CCCeEEEEEECChHhC
Confidence            9999999986                                   123467788888753    3557888888999999


Q ss_pred             ChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          360 DPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       360 d~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .|+++.  |   .+.|+.|+.++...+++..+
T Consensus       126 ~~tI~S--R---~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          126 LPTIKS--R---VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             CHHHHT--T---SEEEECCCCHHHHHHHHHHH
T ss_pred             hHHHHc--e---eEeCCCCCHHHHHHHHHHHh
Confidence            999999  8   78999999999888887765

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.36  E-value=1.1e-13  Score=150.98  Aligned_cols=145  Identities=20%  Similarity=0.189  Sum_probs=98.1

Q ss_pred             ccccChhHHHHHHHhhcc---------------cccccCCCCCcHHHHHHHHHHhcCCcEEEEec----cccCChHHHHH
Q 037859          210 TLAMETKKKEEIKKDLKK---------------GYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL----TTVQDNSELRS  270 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l~r---------------g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~----~~~~~~~~l~~  270 (504)
                      .+.+.+..|+.++..+..               ++||+||||||||++|+++|+.++...+....    ..+.. ..+..
T Consensus       296 ~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~-~~~~~  374 (595)
T 3f9v_A          296 SIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTA-AVVRE  374 (595)
T ss_dssp             TTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEE-ECSSG
T ss_pred             hhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhCCCceecCCCccccccccc-eeeec
Confidence            456777788877766622               59999999999999999999999877665321    11100 00000


Q ss_pred             HHH----------hccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc-
Q 037859          271 LLI----------DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL-  339 (504)
Q Consensus       271 l~~----------~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~-  339 (504)
                      .+.          ....++|+||||||.+-                                   ....+.|+..|+.- 
T Consensus       375 ~~~g~~~~~~G~l~~A~~gil~IDEid~l~-----------------------------------~~~q~~Ll~~le~~~  419 (595)
T 3f9v_A          375 KGTGEYYLEAGALVLADGGIAVIDEIDKMR-----------------------------------DEDRVAIHEAMEQQT  419 (595)
T ss_dssp             GGTSSCSEEECHHHHHSSSEECCTTTTCCC-----------------------------------SHHHHHHHHHHHSSS
T ss_pred             cccccccccCCeeEecCCCcEEeehhhhCC-----------------------------------HhHhhhhHHHHhCCE
Confidence            010          11256899999999851                                   12455666666522 


Q ss_pred             --------cccCCCceEEEEecCCCC-------------CCChhhhcCCCcee-EEEecCCCHHHHHHHHHHhcCc
Q 037859          340 --------WSASGEERIIVFTTNYVD-------------KLDPALIRRGRMDK-HIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       340 --------~~~~~~~~ivI~tTN~~e-------------~Ld~ALlRpGR~d~-~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                              .........||+|||+.+             .|++||++  |||. .+..++|+.+ ...|+++.+..
T Consensus       420 i~i~~~g~~~~~~~~~~vIaatNp~~G~~~~~~~~~~ni~l~~aLl~--RFDl~~~~~~~~~~e-~~~i~~~il~~  492 (595)
T 3f9v_A          420 VSIAKAGIVAKLNARAAVIAAGNPKFGRYISERPVSDNINLPPTILS--RFDLIFILKDQPGEQ-DRELANYILDV  492 (595)
T ss_dssp             EEEESSSSEEEECCCCEEEEEECCTTCCSCTTSCSCTTTCSCSSSGG--GCSCCEEECCTTHHH-HHHHHHHHHTT
T ss_pred             EEEecCCcEEEecCceEEEEEcCCcCCccCcccCchhccCCCHHHHh--hCeEEEEeCCCCCHH-HHHHHHHHHHH
Confidence                    111223467999999987             89999999  9985 5566788888 88888887754

>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=99.35  E-value=1.7e-12  Score=147.62  Aligned_cols=147  Identities=16%  Similarity=0.324  Sum_probs=110.2

Q ss_pred             ccccccChhHHHHHHHhh---c----------ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChH-----
Q 037859          208 FDTLAMETKKKEEIKKDL---K----------KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNS-----  266 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l---~----------rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~-----  266 (504)
                      ++.++++...++.+...+   +          ..+||+||||||||++|+++|+.+   +.+++.++++.+....     
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            456788888888777766   1          258999999999999999999998   7889999998764321     


Q ss_pred             --------------HHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHH
Q 037859          267 --------------ELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGL  332 (504)
Q Consensus       267 --------------~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~l  332 (504)
                                    .+...+.. ...+||||||||.+                                   +..+++.|
T Consensus       637 ~g~~~~~~G~~~~g~l~~~~~~-~~~~vl~lDEi~~l-----------------------------------~~~~~~~L  680 (854)
T 1qvr_A          637 IGAPPGYVGYEEGGQLTEAVRR-RPYSVILFDEIEKA-----------------------------------HPDVFNIL  680 (854)
T ss_dssp             --------------CHHHHHHH-CSSEEEEESSGGGS-----------------------------------CHHHHHHH
T ss_pred             cCCCCCCcCccccchHHHHHHh-CCCeEEEEeccccc-----------------------------------CHHHHHHH
Confidence                          12222221 34689999999975                                   23467888


Q ss_pred             hhhhcCcccc--C-----CCceEEEEecCC--------------------------CCCCChhhhcCCCceeEEEecCCC
Q 037859          333 LNFIDGLWSA--S-----GEERIIVFTTNY--------------------------VDKLDPALIRRGRMDKHIEMSYCC  379 (504)
Q Consensus       333 L~~lDg~~~~--~-----~~~~ivI~tTN~--------------------------~e~Ld~ALlRpGR~d~~I~~~~p~  379 (504)
                      |..||.-.-.  .     -.+.+||+|||.                          ...+.|+|+.  |||..+.|.+|+
T Consensus       681 l~~l~~~~~~~~~g~~vd~~~~iiI~tsn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~--Rl~~~i~~~pl~  758 (854)
T 1qvr_A          681 LQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLT  758 (854)
T ss_dssp             HHHHTTTEECCSSSCCEECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCCCC
T ss_pred             HHHhccCceECCCCCEeccCCeEEEEecCcChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHH--hcCeEEeCCCCC
Confidence            8888743211  0     124689999997                          2357889998  999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 037859          380 FEAFKVLAKNYLD  392 (504)
Q Consensus       380 ~e~~~~i~~~~l~  392 (504)
                      .+++..|++.++.
T Consensus       759 ~edi~~i~~~~l~  771 (854)
T 1qvr_A          759 KEQIRQIVEIQLS  771 (854)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998874

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.33  E-value=5.7e-13  Score=118.39  Aligned_cols=75  Identities=13%  Similarity=0.083  Sum_probs=55.3

Q ss_pred             ccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCeEEEEec
Q 037859          212 AMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIED  285 (504)
Q Consensus       212 ~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDe  285 (504)
                      ++.....+++.+.+      +.++||+||||||||++|+++++..+ +++.+++..+... ....++.. ..+++|||||
T Consensus         7 iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~~~~~~-~~~~~~~~-a~~~~l~lDe   83 (143)
T 3co5_A            7 LGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNGT-PWVSPARVEYLID-MPMELLQK-AEGGVLYVGD   83 (143)
T ss_dssp             -CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTTS-CEECCSSTTHHHH-CHHHHHHH-TTTSEEEEEE
T ss_pred             eeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC-CeEEechhhCChH-hhhhHHHh-CCCCeEEEeC
Confidence            44455555555554      67799999999999999999999888 8888888765321 13444443 4578999999


Q ss_pred             cccc
Q 037859          286 IDCS  289 (504)
Q Consensus       286 iD~~  289 (504)
                      ||.+
T Consensus        84 i~~l   87 (143)
T 3co5_A           84 IAQY   87 (143)
T ss_dssp             CTTC
T ss_pred             hHHC
Confidence            9986

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.33  E-value=4.8e-12  Score=126.82  Aligned_cols=144  Identities=17%  Similarity=0.206  Sum_probs=93.6

Q ss_pred             cccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHHHHh-------
Q 037859          211 LAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSLLID-------  274 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~~~-------  274 (504)
                      +++.....+.+.+.+      +.++||+||||||||++|+++++..   +.+++.++|+.+...---..+|..       
T Consensus         4 iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~~~lfg~~~g~~tg   83 (304)
T 1ojl_A            4 MIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLESELFGHEKGAFTG   83 (304)
T ss_dssp             CCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHHHHHTCCCSSCCC-
T ss_pred             cEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHHHHhcCccccccCc
Confidence            445555555555554      5679999999999999999999965   578999999877432111122211       


Q ss_pred             ----------ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc----
Q 037859          275 ----------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW----  340 (504)
Q Consensus       275 ----------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~----  340 (504)
                                ...+++|||||||.+-                                   ......||..++...    
T Consensus        84 ~~~~~~g~~~~a~~g~L~LDEi~~l~-----------------------------------~~~q~~Ll~~l~~~~~~~~  128 (304)
T 1ojl_A           84 ADKRREGRFVEADGGTLFLDEIGDIS-----------------------------------PLMQVRLLRAIQEREVQRV  128 (304)
T ss_dssp             --CCCCCHHHHHTTSEEEEESCTTCC-----------------------------------HHHHHHHHHHHHSSBCCBT
T ss_pred             hhhhhcCHHHhcCCCEEEEeccccCC-----------------------------------HHHHHHHHHHHhcCEeeec
Confidence                      1245799999999862                                   123455666665321    


Q ss_pred             ---ccCCCceEEEEecCCC-------CCCChhhhcCCCce-eEEEecCCC--HHHHHHHHHHhc
Q 037859          341 ---SASGEERIIVFTTNYV-------DKLDPALIRRGRMD-KHIEMSYCC--FEAFKVLAKNYL  391 (504)
Q Consensus       341 ---~~~~~~~ivI~tTN~~-------e~Ld~ALlRpGR~d-~~I~~~~p~--~e~~~~i~~~~l  391 (504)
                         ......+.||+|||..       ..++++|..  ||. ..|.+|...  .++...|++.|+
T Consensus       129 g~~~~~~~~~riI~atn~~l~~~v~~g~fr~~L~~--Rl~~~~i~lPpL~eR~edi~~l~~~~l  190 (304)
T 1ojl_A          129 GSNQTISVDVRLIAATHRDLAEEVSAGRFRQDLYY--RLNVVAIEMPSLRQRREDIPLLADHFL  190 (304)
T ss_dssp             TBCCCCBCCCEEEEEESSCHHHHHHHTSSCHHHHH--HHSSEEEECCCSGGGGGGHHHHHHHHH
T ss_pred             CCcccccCCeEEEEecCccHHHHHHhCCcHHHHHh--hcCeeEEeccCHHHhHhhHHHHHHHHH
Confidence               0012346789999975       346778888  874 445565554  456666777776

>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=99.14  E-value=2.4e-11  Score=111.70  Aligned_cols=82  Identities=21%  Similarity=0.356  Sum_probs=54.4

Q ss_pred             CccccccccChhHHHHHHHhh-----------cccccccCCCCCcHHHHHHHHHHhc----CCcEEEEeccccCChHHHH
Q 037859          205 PATFDTLAMETKKKEEIKKDL-----------KKGYLLYGPPGTGKSTMIAAMANFL----NYDVYDLELTTVQDNSELR  269 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l-----------~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~~~~~~~l~  269 (504)
                      +.+|+++.......+.+++.+           +++++|+||||||||+|++++|+.+    |..++.+++..+.  ..+.
T Consensus         6 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~~--~~~~   83 (180)
T 3ec2_A            6 NANLDTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLI--FRLK   83 (180)
T ss_dssp             TCCSSSCCCCSHHHHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHHH--HHHH
T ss_pred             hCccccccCCCHHHHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHHH--HHHH
Confidence            457888876433233222222           4679999999999999999999887    6666666654431  1111


Q ss_pred             ---------HHHHhccCCeEEEEecccc
Q 037859          270 ---------SLLIDTSSKSILVIEDIDC  288 (504)
Q Consensus       270 ---------~l~~~~~~~~Il~iDeiD~  288 (504)
                               ..+.....+.+|+|||++.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~llilDE~~~  111 (180)
T 3ec2_A           84 HLMDEGKDTKFLKTVLNSPVLVLDDLGS  111 (180)
T ss_dssp             HHHHHTCCSHHHHHHHTCSEEEEETCSS
T ss_pred             HHhcCchHHHHHHHhcCCCEEEEeCCCC
Confidence                     2233334789999999986

>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=99.11  E-value=3.1e-10  Score=117.29  Aligned_cols=151  Identities=10%  Similarity=0.125  Sum_probs=97.9

Q ss_pred             cccccChhHHHHHHHhh-----------cccccc--cCCCCCcHHHHHHHHHHhc---------CCcEEEEeccccCCh-
Q 037859          209 DTLAMETKKKEEIKKDL-----------KKGYLL--YGPPGTGKSTMIAAMANFL---------NYDVYDLELTTVQDN-  265 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l-----------~rg~LL--~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~~~~~-  265 (504)
                      +.+++.+...+.+...+           ++.+++  +||||||||++++++++.+         +..++.+++....+. 
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY  101 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHH
Confidence            56777777666666554           234889  9999999999999999876         456777776432111 


Q ss_pred             ---------------------HH----HHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccC
Q 037859          266 ---------------------SE----LRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDG  320 (504)
Q Consensus       266 ---------------------~~----l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (504)
                                           ..    +...+.....+.||+|||+|.+...                            
T Consensus       102 ~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~----------------------------  153 (412)
T 1w5s_A          102 TILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSS----------------------------  153 (412)
T ss_dssp             HHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSC----------------------------
T ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhc----------------------------
Confidence                                 11    2222222346889999999986310                            


Q ss_pred             CCcchhhHHHHHhhhhcCccccCC--CceEEEEecCCCC---CCC---hhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          321 GSKKSKVTLSGLLNFIDGLWSASG--EERIIVFTTNYVD---KLD---PALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       321 ~~~~~~~~ls~lL~~lDg~~~~~~--~~~ivI~tTN~~e---~Ld---~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                       .......+..++..++... ..+  ..+.+|+|||.++   .++   +.+.+  |+...+.++.++.++...++...+
T Consensus       154 -~~~~~~~l~~l~~~~~~~~-~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~--~~~~~i~l~~l~~~e~~~ll~~~~  228 (412)
T 1w5s_A          154 -PRIAAEDLYTLLRVHEEIP-SRDGVNRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPAYKSRELYTILEQRA  228 (412)
T ss_dssp             -TTSCHHHHHHHHTHHHHSC-CTTSCCBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             -cCcchHHHHHHHHHHHhcc-cCCCCceEEEEEEeccccHHHHHhhhcchhhh--hcCCeeeeCCCCHHHHHHHHHHHH
Confidence             0011234555555554331 012  4577888888665   345   67777  665569999999999999987654

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=99.04  E-value=1.4e-09  Score=135.17  Aligned_cols=155  Identities=14%  Similarity=0.281  Sum_probs=102.3

Q ss_pred             cccccccChhHH---HHHHHhh---cccccccCCCCCcHHHHHHHH-HHhcCCcEEEEeccccCChHHHHHHHHhc----
Q 037859          207 TFDTLAMETKKK---EEIKKDL---KKGYLLYGPPGTGKSTMIAAM-ANFLNYDVYDLELTTVQDNSELRSLLIDT----  275 (504)
Q Consensus       207 ~f~~~~~~~~~k---~~i~~~l---~rg~LL~GPpGtGKTsla~ai-A~~l~~~i~~l~~~~~~~~~~l~~l~~~~----  275 (504)
                      +|.++..+...-   ..+++.+   ++.+||+||||||||++++.. ++..+.+++.++++...+...+...+...    
T Consensus      1279 ~~~~ilVPT~DTvR~~~ll~~ll~~~~pvLL~GptGtGKT~li~~~L~~l~~~~~~~infS~~Tta~~l~~~~e~~~e~~ 1358 (3245)
T 3vkg_A         1279 ASPDVVIPTVDTTRHVDVLHAWLSEHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDHHCEYK 1358 (3245)
T ss_dssp             TCTTCCCCCHHHHHHHHHHHHHHHTTCCCEEESSTTSSHHHHHHHHGGGCTTEEEEEECCCTTCCHHHHHHHHHHHEEEE
T ss_pred             CcccceecchHHHHHHHHHHHHHHCCCcEEEECCCCCCHHHHHHHHHHhCCCCceEEEEeeCCCCHHHHHHHHhhcceEE
Confidence            455555554222   2333333   788999999999999887654 44447788899999998888888777530    


Q ss_pred             --------------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          276 --------------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       276 --------------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                                    .++.|+||||++.--     .                     +..|....-..+.+++.. .|++.
T Consensus      1359 ~~~~~G~~~~p~~~Gk~~VlFiDDiNmp~-----~---------------------D~yGtQ~~ielLrqlld~-~g~yd 1411 (3245)
T 3vkg_A         1359 RTPSGETVLRPTQLGKWLVVFCDEINLPS-----T---------------------DKYGTQRVITFIRQMVEK-GGFWR 1411 (3245)
T ss_dssp             ECTTSCEEEEESSTTCEEEEEETTTTCCC-----C---------------------CTTSCCHHHHHHHHHHHH-SEEEE
T ss_pred             eccCCCcccCCCcCCceEEEEecccCCCC-----c---------------------cccccccHHHHHHHHHHc-CCeEE
Confidence                          124799999999621     0                     011222222233333321 12222


Q ss_pred             cC------CCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          342 AS------GEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       342 ~~------~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      ..      -.++.+|+|+|++.     .|+|+|+|  || ..+.+++|+.+....|+..++
T Consensus      1412 ~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r--~F-~vi~i~~ps~esL~~If~til 1469 (3245)
T 3vkg_A         1412 TSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLR--HA-PILLVDFPSTSSLTQIYGTFN 1469 (3245)
T ss_dssp             TTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHT--TC-CEEECCCCCHHHHHHHHHHHH
T ss_pred             CCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHh--hc-eEEEeCCCCHHHHHHHHHHHH
Confidence            11      13467899999873     59999999  99 569999999999999987654

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.01  E-value=4.4e-10  Score=122.90  Aligned_cols=50  Identities=36%  Similarity=0.413  Sum_probs=43.5

Q ss_pred             CCCccccccccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcCC
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      ..|..|+.+.++...++.+...+  ...++|+||||||||+++++||+.+..
T Consensus        35 ~rp~~l~~i~G~~~~l~~l~~~i~~g~~vll~Gp~GtGKTtlar~ia~~l~~   86 (604)
T 3k1j_A           35 VPEKLIDQVIGQEHAVEVIKTAANQKRHVLLIGEPGTGKSMLGQAMAELLPT   86 (604)
T ss_dssp             CCSSHHHHCCSCHHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHTSCC
T ss_pred             ccccccceEECchhhHhhccccccCCCEEEEEeCCCCCHHHHHHHHhccCCc
Confidence            45788999999998888887777  566999999999999999999998853

>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=99.00  E-value=2.4e-10  Score=117.53  Aligned_cols=116  Identities=20%  Similarity=0.252  Sum_probs=82.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCeEEEEeccccccccccccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDED  305 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~  305 (504)
                      ++.++|+|||||||||+++++|+.++..++.++...    ......+....++.++++||++.+...  .++.       
T Consensus       169 ~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~~~----~~~~~~lg~~~q~~~~l~dd~~~~~~~--~r~l-------  235 (377)
T 1svm_A          169 KRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPL----DRLNFELGVAIDQFLVVFEDVKGTGGE--SRDL-------  235 (377)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCT----TTHHHHHGGGTTCSCEEETTCCCSTTT--TTTC-------
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEeccc----hhHHHHHHHhcchhHHHHHHHHHHHHH--Hhhc-------
Confidence            456899999999999999999999887766533221    122223455567888999999986421  1100       


Q ss_pred             ccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecC
Q 037859          306 KEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSY  377 (504)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~  377 (504)
                                     .........+.+.+.+||.       +.++++|||++.+ ++++||||++..+...+
T Consensus       236 ---------------~~~~~~~~~~~l~~~ldG~-------v~v~~~tn~~~~l-~alf~pg~ld~~~~~l~  284 (377)
T 1svm_A          236 ---------------PSGQGINNLDNLRDYLDGS-------VKVNLEKKHLNKR-TQIFPPGIVTMNEYSVP  284 (377)
T ss_dssp             ---------------CCCSHHHHHHTTHHHHHCS-------SCEEECCSSSCCE-EECCCCEEEEECSCCCC
T ss_pred             ---------------cccCcchHHHHHHHHhcCC-------CeEeeccCchhhH-HHhhcCcccChhHHhhc
Confidence                           0001112567788888874       4578899999999 89999999998887755

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.98  E-value=3.8e-10  Score=105.56  Aligned_cols=109  Identities=20%  Similarity=0.207  Sum_probs=66.6

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCeEEEEecccccccccccccccccccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDK  306 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~  306 (504)
                      +++|||||||||||++|.++|+.++-.++.+.-+  ...    -.+.......|++|||+|..+                
T Consensus        59 n~ili~GPPGtGKTt~a~ala~~l~g~i~~fans--~s~----f~l~~l~~~kIiiLDEad~~~----------------  116 (212)
T 1tue_A           59 NCLVFCGPANTGKSYFGMSFIHFIQGAVISFVNS--TSH----FWLEPLTDTKVAMLDDATTTC----------------  116 (212)
T ss_dssp             SEEEEESCGGGCHHHHHHHHHHHHTCEECCCCCS--SSC----GGGGGGTTCSSEEEEEECHHH----------------
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCeeeEEec--cch----hhhcccCCCCEEEEECCCchh----------------
Confidence            5799999999999999999999987655432111  010    011223345699999998621                


Q ss_pred             cccCcccccccccCCCcchhhHHHHHhhhhcCcc----ccCC-----CceEEEEecCC---CCCCChhhhcCCCceeEEE
Q 037859          307 EEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW----SASG-----EERIIVFTTNY---VDKLDPALIRRGRMDKHIE  374 (504)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~----~~~~-----~~~ivI~tTN~---~e~Ld~ALlRpGR~d~~I~  374 (504)
                                        .......+-+.+||..    ....     ....+|.|||.   .+..-+.|..  |+ ..+.
T Consensus       117 ------------------~~~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN~~~~~~~~~~~L~S--Ri-~~f~  175 (212)
T 1tue_A          117 ------------------WTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLES--RI-TVFE  175 (212)
T ss_dssp             ------------------HHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHT--SC-EEEE
T ss_pred             ------------------HHHHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecCCCcccccchhhhhh--hE-EEEE
Confidence                              1112234556777741    1111     12368899997   3334467888  88 5777


Q ss_pred             ecCC
Q 037859          375 MSYC  378 (504)
Q Consensus       375 ~~~p  378 (504)
                      |+.|
T Consensus       176 F~~~  179 (212)
T 1tue_A          176 FPNA  179 (212)
T ss_dssp             CCSC
T ss_pred             cCCC
Confidence            7743

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.97  E-value=3.1e-10  Score=105.95  Aligned_cols=85  Identities=20%  Similarity=0.293  Sum_probs=54.7

Q ss_pred             CccccccccChhHHH----HHHHhh--c------ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCC-----
Q 037859          205 PATFDTLAMETKKKE----EIKKDL--K------KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQD-----  264 (504)
Q Consensus       205 p~~f~~~~~~~~~k~----~i~~~l--~------rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~-----  264 (504)
                      +.+|+++.......+    .+...+  .      ++++|+||||||||++++++++++   +.+++.+++..+..     
T Consensus        21 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (202)
T 2w58_A           21 RASLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHS  100 (202)
T ss_dssp             CCCTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHHHHHHHHHC
T ss_pred             cCCHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHHHHHHHHHH
Confidence            457888876553222    222332  1      789999999999999999999988   67777777654310     


Q ss_pred             --hHHHHHHHHhccCCeEEEEeccccc
Q 037859          265 --NSELRSLLIDTSSKSILVIEDIDCS  289 (504)
Q Consensus       265 --~~~l~~l~~~~~~~~Il~iDeiD~~  289 (504)
                        ...+..++.......+|+|||++..
T Consensus       101 ~~~~~~~~~~~~~~~~~~lilDei~~~  127 (202)
T 2w58_A          101 LQDQTMNEKLDYIKKVPVLMLDDLGAE  127 (202)
T ss_dssp             ---CCCHHHHHHHHHSSEEEEEEECCC
T ss_pred             hccchHHHHHHHhcCCCEEEEcCCCCC
Confidence              0001122222234569999999863

>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=98.84  E-value=1.5e-08  Score=125.20  Aligned_cols=124  Identities=19%  Similarity=0.183  Sum_probs=95.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhcc-CCeEEEEecccccccccccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTS-SKSILVIEDIDCSLDLTGQREKKKEKDE  304 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~-~~~Il~iDeiD~~~~~~~~~~~~~~~~~  304 (504)
                      ..|.+++||||||||++++++|+.+|.+++.++|+...+...+.++|..+. ..+.+++|||+.+-              
T Consensus       645 ~~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~nc~e~ld~~~lg~~~~g~~~~Gaw~~~DE~nr~~--------------  710 (2695)
T 4akg_A          645 KYGGCFFGPAGTGKTETVKAFGQNLGRVVVVFNCDDSFDYQVLSRLLVGITQIGAWGCFDEFNRLD--------------  710 (2695)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHTTTCCCEEEETTSSCCHHHHHHHHHHHHHHTCEEEEETTTSSC--------------
T ss_pred             CCCCcccCCCCCCcHHHHHHHHHHhCCcEEEEECCCCCChhHhhHHHHHHHhcCCEeeehhhhhcC--------------
Confidence            788999999999999999999999999999999999888888988887764 57999999999851              


Q ss_pred             cccccCcccccccccCCCcchhhHHHHH---h----hhh---------cCccccCCCceEEEEecC----CCCCCChhhh
Q 037859          305 DKEEKNPIEKKEKEDGGSKKSKVTLSGL---L----NFI---------DGLWSASGEERIIVFTTN----YVDKLDPALI  364 (504)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~~~~~ls~l---L----~~l---------Dg~~~~~~~~~ivI~tTN----~~e~Ld~ALl  364 (504)
                                           ..+++.+   +    +.+         +|-.-.......+++|.|    ....|+++|.
T Consensus       711 ---------------------~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk  769 (2695)
T 4akg_A          711 ---------------------EKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLK  769 (2695)
T ss_dssp             ---------------------HHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHH
T ss_pred             ---------------------hHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHH
Confidence                                 1122222   1    211         111111123345788888    3456999999


Q ss_pred             cCCCceeEEEecCCCHHHHHHHH
Q 037859          365 RRGRMDKHIEMSYCCFEAFKVLA  387 (504)
Q Consensus       365 RpGR~d~~I~~~~p~~e~~~~i~  387 (504)
                      +  || +.|.|.+|+.+...+|.
T Consensus       770 ~--~F-r~v~m~~Pd~~~i~ei~  789 (2695)
T 4akg_A          770 K--SF-REFSMKSPQSGTIAEMI  789 (2695)
T ss_dssp             T--TE-EEEECCCCCHHHHHHHH
T ss_pred             h--he-EEEEeeCCCHHHHHHHH
Confidence            9  99 89999999998877775

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.84  E-value=6.9e-09  Score=97.32  Aligned_cols=119  Identities=15%  Similarity=0.163  Sum_probs=75.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHh--------cC-CcEEEEeccccCC---------------------hHHHHHHHH-hcc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF--------LN-YDVYDLELTTVQD---------------------NSELRSLLI-DTS  276 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~--------l~-~~i~~l~~~~~~~---------------------~~~l~~l~~-~~~  276 (504)
                      -+|++|+||||||++|.+++..        .| .++|..++..+..                     ...+...+. ...
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~   86 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKSTDEQLSAHDMYEWIKKPEN   86 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEEEECCTTTCSSCCSSCEEGGGHHHHTTSGGG
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccccchhhhhccccCcccccHHHHHHHhhcccc
Confidence            4789999999999999886433        34 7777666554321                     022232221 123


Q ss_pred             CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCC
Q 037859          277 SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYV  356 (504)
Q Consensus       277 ~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~  356 (504)
                      .++||+|||++.+++....                         . .+..    .+|..+..   ....+.-||++|+++
T Consensus        87 ~~~vliIDEAq~l~~~~~~-------------------------~-~e~~----rll~~l~~---~r~~~~~iil~tq~~  133 (199)
T 2r2a_A           87 IGSIVIVDEAQDVWPARSA-------------------------G-SKIP----ENVQWLNT---HRHQGIDIFVLTQGP  133 (199)
T ss_dssp             TTCEEEETTGGGTSBCCCT-------------------------T-CCCC----HHHHGGGG---TTTTTCEEEEEESCG
T ss_pred             CceEEEEEChhhhccCccc-------------------------c-chhH----HHHHHHHh---cCcCCeEEEEECCCH
Confidence            5899999999997531100                         0 0011    23333332   223446788889889


Q ss_pred             CCCChhhhcCCCceeEEEecCCCHH
Q 037859          357 DKLDPALIRRGRMDKHIEMSYCCFE  381 (504)
Q Consensus       357 e~Ld~ALlRpGR~d~~I~~~~p~~e  381 (504)
                      +.||.+|.+  |++.++++..|...
T Consensus       134 ~~l~~~lr~--ri~~~~~l~~~~~~  156 (199)
T 2r2a_A          134 KLLDQNLRT--LVRKHYHIASNKMG  156 (199)
T ss_dssp             GGBCHHHHT--TEEEEEEEEECSSC
T ss_pred             HHHhHHHHH--HhheEEEEcCcccC
Confidence            999999988  99999999876443

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.80  E-value=1.8e-09  Score=108.25  Aligned_cols=84  Identities=24%  Similarity=0.396  Sum_probs=52.6

Q ss_pred             CccccccccChhHHH----HHHHhh-------cccccccCCCCCcHHHHHHHHHHhcC----CcEEEEeccccC------
Q 037859          205 PATFDTLAMETKKKE----EIKKDL-------KKGYLLYGPPGTGKSTMIAAMANFLN----YDVYDLELTTVQ------  263 (504)
Q Consensus       205 p~~f~~~~~~~~~k~----~i~~~l-------~rg~LL~GPpGtGKTsla~aiA~~l~----~~i~~l~~~~~~------  263 (504)
                      +.+|+++......+.    .+.+.+       +++++||||||||||+|+.++|+++.    .++..+.+..+.      
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            467888887552222    222222       36799999999999999999998664    777777654320      


Q ss_pred             -ChHHHHHHHHhccCCeEEEEecccc
Q 037859          264 -DNSELRSLLIDTSSKSILVIEDIDC  288 (504)
Q Consensus       264 -~~~~l~~l~~~~~~~~Il~iDeiD~  288 (504)
                       ....+...+.......+|+||||+.
T Consensus       200 ~~~~~~~~~~~~~~~~~lLiiDdig~  225 (308)
T 2qgz_A          200 ISNGSVKEEIDAVKNVPVLILDDIGA  225 (308)
T ss_dssp             CC----CCTTHHHHTSSEEEEETCCC
T ss_pred             hccchHHHHHHHhcCCCEEEEcCCCC
Confidence             0111111122223567999999976

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.76  E-value=5.7e-09  Score=93.28  Aligned_cols=57  Identities=12%  Similarity=0.191  Sum_probs=45.4

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHHHHhccCCeEEEEeccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCS  289 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~  289 (504)
                      ...++|+||+|+|||+|++++++.+   |..++.++...+...       .-..++.||+|||++.+
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~-------~~~~~~~lLilDE~~~~   95 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT-------DAAFEAEYLAVDQVEKL   95 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC-------GGGGGCSEEEEESTTCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH-------HHHhCCCEEEEeCcccc
Confidence            4568999999999999999999988   777888877766433       11346789999999874

>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=98.67  E-value=1.3e-07  Score=95.13  Aligned_cols=52  Identities=31%  Similarity=0.305  Sum_probs=42.7

Q ss_pred             cccccChhHHHHHHHhhc-ccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccc
Q 037859          209 DTLAMETKKKEEIKKDLK-KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT  261 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l~-rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  261 (504)
                      +.+.+.+...+.+.+ +. +.++++||+|+|||+|++.+++.++.+.+.+++..
T Consensus        13 ~~~~gR~~el~~L~~-l~~~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~   65 (357)
T 2fna_A           13 KDFFDREKEIEKLKG-LRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRK   65 (357)
T ss_dssp             GGSCCCHHHHHHHHH-TCSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGG
T ss_pred             HHhcChHHHHHHHHH-hcCCcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchh
Confidence            456777777888888 73 46889999999999999999999887777777654

>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=98.64  E-value=9e-09  Score=102.85  Aligned_cols=110  Identities=14%  Similarity=0.171  Sum_probs=63.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEec------cccC-ChHHH-HHHHHhcc-CCeEEEEeccccccccccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL------TTVQ-DNSEL-RSLLIDTS-SKSILVIEDIDCSLDLTGQRE  297 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~------~~~~-~~~~l-~~l~~~~~-~~~Il~iDeiD~~~~~~~~~~  297 (504)
                      +.+||+||||||||+|+.++|...+.++.++++      .... +...+ ..+..... .+ +||||+|+.+......  
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~~-LLVIDsI~aL~~~~~~--  200 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHR-VIVIDSLKNVIGAAGG--  200 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCS-EEEEECCTTTC-------
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhCC-EEEEeccccccccccc--
Confidence            447999999999999999999876655444444      1111 22222 22222222 23 9999999986321100  


Q ss_pred             ccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhh
Q 037859          298 KKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPAL  363 (504)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~AL  363 (504)
                                           .+........+.++|..|+++...  .++.+|++|| +...|+++
T Consensus       201 ---------------------~s~~G~v~~~lrqlL~~L~~~~k~--~gvtVIlttn-p~s~deal  242 (331)
T 2vhj_A          201 ---------------------NTTSGGISRGAFDLLSDIGAMAAS--RGCVVIASLN-PTSNDDKI  242 (331)
T ss_dssp             ---------------------------CCHHHHHHHHHHHHHHHH--HTCEEEEECC-CSSCSSSH
T ss_pred             ---------------------ccccchHHHHHHHHHHHHHHHHhh--CCCEEEEEeC-CcccchhH
Confidence                                 000111234567777777766332  3467888888 55667664

>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=98.63  E-value=6e-08  Score=94.55  Aligned_cols=56  Identities=21%  Similarity=0.290  Sum_probs=38.4

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCeEEEEecccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDC  288 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~  288 (504)
                      +++++||||||||||+++.|||+.+..-. .++.+.-      ...|.....+.|++.||...
T Consensus       104 ~n~~~l~GppgtGKt~~a~ala~~~~l~G-~vn~~~~------~f~l~~~~~k~i~l~Ee~~~  159 (267)
T 1u0j_A          104 RNTIWLFGPATTGKTNIAEAIAHTVPFYG-CVNWTNE------NFPFNDCVDKMVIWWEEGKM  159 (267)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHSSCEE-ECCTTCS------SCTTGGGSSCSEEEECSCCE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhhhcccc-eeecccc------ccccccccccEEEEeccccc
Confidence            34799999999999999999999875522 2232211      11244456677888888765

>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=98.59  E-value=2.4e-08  Score=104.21  Aligned_cols=130  Identities=15%  Similarity=0.131  Sum_probs=83.1

Q ss_pred             cccChhHHHHHHHhhcc---------cccccCCCCCcHHHHHHHH-HHhcCCcEEEEeccccCChHHHHHH------H--
Q 037859          211 LAMETKKKEEIKKDLKK---------GYLLYGPPGTGKSTMIAAM-ANFLNYDVYDLELTTVQDNSELRSL------L--  272 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l~r---------g~LL~GPpGtGKTsla~ai-A~~l~~~i~~l~~~~~~~~~~l~~l------~--  272 (504)
                      +.+++..|+.++-.+-.         .+||.|+||| ||++++++ ++.+...+|.....  .+...|...      +  
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~~~  291 (506)
T 3f8t_A          215 LPGAEEVGKMLALQLFSCVGKNSERLHVLLAGYPVV-CSEILHHVLDHLAPRGVYVDLRR--TELTDLTAVLKEDRGWAL  291 (506)
T ss_dssp             STTCHHHHHHHHHHHTTCCSSGGGCCCEEEESCHHH-HHHHHHHHHHHTCSSEEEEEGGG--CCHHHHSEEEEESSSEEE
T ss_pred             cCCCHHHHHHHHHHHcCCccccCCceeEEEECCCCh-HHHHHHHHHHHhCCCeEEecCCC--CCccCceEEEEcCCCccc
Confidence            56778888888877722         4999999999 99999999 77766655542211  111111100      0  


Q ss_pred             ----HhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhc-------Cccc
Q 037859          273 ----IDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID-------GLWS  341 (504)
Q Consensus       273 ----~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD-------g~~~  341 (504)
                          .......|+|||||+.+                                   ...+.+.|+..|+       |.  
T Consensus       292 ~~G~l~LAdgGvl~lDEIn~~-----------------------------------~~~~qsaLlEaMEe~~VtI~G~--  334 (506)
T 3f8t_A          292 RAGAAVLADGGILAVDHLEGA-----------------------------------PEPHRWALMEAMDKGTVTVDGI--  334 (506)
T ss_dssp             EECHHHHTTTSEEEEECCTTC-----------------------------------CHHHHHHHHHHHHHSEEEETTE--
T ss_pred             CCCeeEEcCCCeeehHhhhhC-----------------------------------CHHHHHHHHHHHhCCcEEECCE--
Confidence                11235789999999985                                   2346667777665       22  


Q ss_pred             cCCCceEEEEecCCCC-----------CCChhhhcCCCceeEEE-ecCCCHHH
Q 037859          342 ASGEERIIVFTTNYVD-----------KLDPALIRRGRMDKHIE-MSYCCFEA  382 (504)
Q Consensus       342 ~~~~~~ivI~tTN~~e-----------~Ld~ALlRpGR~d~~I~-~~~p~~e~  382 (504)
                      .-.....||+|+|..+           .|+++++.  |||+.+. +++|+.+.
T Consensus       335 ~lparf~VIAA~NP~~~yd~~~s~~~~~Lp~alLD--RFDLi~i~~d~pd~e~  385 (506)
T 3f8t_A          335 ALNARCAVLAAINPGEQWPSDPPIARIDLDQDFLS--HFDLIAFLGVDPRPGE  385 (506)
T ss_dssp             EEECCCEEEEEECCCC--CCSCGGGGCCSCHHHHT--TCSEEEETTC------
T ss_pred             EcCCCeEEEEEeCcccccCCCCCccccCCChHHhh--heeeEEEecCCCChhH
Confidence            1123467999999876           78999999  9997654 57776554

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.56  E-value=9.2e-07  Score=88.62  Aligned_cols=50  Identities=18%  Similarity=0.197  Sum_probs=39.6

Q ss_pred             cccccChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecc
Q 037859          209 DTLAMETKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELT  260 (504)
Q Consensus       209 ~~~~~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  260 (504)
                      +.+.+.+...+.+.+.+  .+.++++||+|+|||+|++.+++..+  .+.+++.
T Consensus        12 ~~~~gR~~el~~L~~~l~~~~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~~   63 (350)
T 2qen_A           12 EDIFDREEESRKLEESLENYPLTLLLGIRRVGKSSLLRAFLNERP--GILIDCR   63 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHHCSEEEEECCTTSSHHHHHHHHHHHSS--EEEEEHH
T ss_pred             HhcCChHHHHHHHHHHHhcCCeEEEECCCcCCHHHHHHHHHHHcC--cEEEEee
Confidence            45677777777777766  35689999999999999999999876  5566553

>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=98.51  E-value=7.8e-08  Score=114.39  Aligned_cols=110  Identities=13%  Similarity=0.170  Sum_probs=70.0

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC----------------------ChHHHHHHHHh--cc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ----------------------DNSELRSLLID--TS  276 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~----------------------~~~~l~~l~~~--~~  276 (504)
                      |+|  +|+|||||||||+||+++|.+.   +-+..+++.....                      +...|+-++..  ..
T Consensus      1080 p~g~~~l~~G~~g~GKT~la~~~~~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~ 1159 (1706)
T 3cmw_A         1080 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSG 1159 (1706)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEEcCCCCChHHHHHHHHHHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhc
Confidence            577  9999999999999999998765   4455555544311                      12345444432  34


Q ss_pred             CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCC
Q 037859          277 SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYV  356 (504)
Q Consensus       277 ~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~  356 (504)
                      .+|+|++|++|++++..+.+..                  .+........+.++++|..||++....  .++|| +||+.
T Consensus      1160 ~~~~i~~d~~~al~~~~~~~g~------------------~~~~~~~~~~r~~~q~l~~~~~~~~~~--~v~v~-~~n~~ 1218 (1706)
T 3cmw_A         1160 AVDVIVVDSVAALTPKAEIEGE------------------IGDSHMGLAARMMSQAMRKLAGNLKQS--NTLLI-FINQI 1218 (1706)
T ss_dssp             CCSEEEESCGGGCCCHHHHHSC------------------TTCCCTTHHHHHHHHHHHHHHHHHHHT--TCEEE-EEECE
T ss_pred             CCeEEEeCchHhcCcccccccc------------------cccccccHHHHHHHHHHHHHHhhhccC--CeEEE-Eeccc
Confidence            7999999999998643221100                  000011334557999999999975433  24444 77765

>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=98.50  E-value=6.5e-07  Score=92.40  Aligned_cols=145  Identities=20%  Similarity=0.207  Sum_probs=90.4

Q ss_pred             cccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhcC---CcEEEEeccccCChHHHHHHHHh-------
Q 037859          211 LAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFLN---YDVYDLELTTVQDNSELRSLLID-------  274 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~~~l~~l~~~-------  274 (504)
                      +++.....+++.+.+      ...+|++|++||||+++|+++.....   .+++.++|+.+...---..+|..       
T Consensus       139 ~ig~s~~m~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~~~elfg~~~g~~tg  218 (387)
T 1ny5_A          139 YVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTG  218 (387)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCTTSSTT
T ss_pred             hhhccHHhhHHHHHHHHhcCCCCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHHHHHhcCCCCCCCCC
Confidence            344444445555444      45689999999999999999988764   68999999987533222333321       


Q ss_pred             ----------ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc----
Q 037859          275 ----------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW----  340 (504)
Q Consensus       275 ----------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~----  340 (504)
                                .....+||||||+.+                                   +......||..|+.-.    
T Consensus       219 a~~~~~g~~~~a~~gtlfldei~~l-----------------------------------~~~~q~~Ll~~l~~~~~~~~  263 (387)
T 1ny5_A          219 AVSSKEGFFELADGGTLFLDEIGEL-----------------------------------SLEAQAKLLRVIESGKFYRL  263 (387)
T ss_dssp             CCSCBCCHHHHTTTSEEEEESGGGC-----------------------------------CHHHHHHHHHHHHHSEECCB
T ss_pred             cccccCCceeeCCCcEEEEcChhhC-----------------------------------CHHHHHHHHHHHhcCcEEeC
Confidence                      134579999999986                                   1234555666554210    


Q ss_pred             ---ccCCCceEEEEecCCC-------CCCChhhhcCCCce-eEEEecCC--CHHHHHHHHHHhcC
Q 037859          341 ---SASGEERIIVFTTNYV-------DKLDPALIRRGRMD-KHIEMSYC--CFEAFKVLAKNYLD  392 (504)
Q Consensus       341 ---~~~~~~~ivI~tTN~~-------e~Ld~ALlRpGR~d-~~I~~~~p--~~e~~~~i~~~~l~  392 (504)
                         ......+.+|+|||..       ..+.+.|.-  |+. ..|++|..  ..++...|+..|+.
T Consensus       264 g~~~~~~~~~rii~at~~~l~~~~~~g~fr~dl~~--rl~~~~i~lPpLreR~~Di~~l~~~~l~  326 (387)
T 1ny5_A          264 GGRKEIEVNVRILAATNRNIKELVKEGKFREDLYY--RLGVIEIEIPPLRERKEDIIPLANHFLK  326 (387)
T ss_dssp             TCCSBEECCCEEEEEESSCHHHHHHTTSSCHHHHH--HHTTEEEECCCGGGCHHHHHHHHHHHHH
T ss_pred             CCCceeeccEEEEEeCCCCHHHHHHcCCccHHHHH--hhcCCeecCCcchhccccHHHHHHHHHH
Confidence               0011235688999863       344555555  553 44555554  24777778877763

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.48  E-value=4.7e-07  Score=112.91  Aligned_cols=129  Identities=17%  Similarity=0.118  Sum_probs=95.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhcc-CCeEEEEecccccccccccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTS-SKSILVIEDIDCSLDLTGQREKKKEKDE  304 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~-~~~Il~iDeiD~~~~~~~~~~~~~~~~~  304 (504)
                      ..|..+.||+|||||.+++++|+.+|.+++.++|+.-.+...+.++|..+. ..+..++|||+.+-              
T Consensus       604 ~~gg~~~GPaGtGKTet~k~La~~lgr~~~vfnC~~~~d~~~~g~i~~G~~~~GaW~cfDEfNrl~--------------  669 (3245)
T 3vkg_A          604 RMGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFDLQAMSRIFVGLCQCGAWGCFDEFNRLE--------------  669 (3245)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHTTCCEEEEECSSCCCHHHHHHHHHHHHHHTCEEEEETTTSSC--------------
T ss_pred             cCCCCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHhhHhhcCcEEEehhhhcCC--------------
Confidence            567789999999999999999999999999999998888888888887764 58899999999851              


Q ss_pred             cccccCcccccccccCCCcchhhHHHHHhhhh----------------c-CccccCCCceEEEEecCC----CCCCChhh
Q 037859          305 DKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFI----------------D-GLWSASGEERIIVFTTNY----VDKLDPAL  363 (504)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~l----------------D-g~~~~~~~~~ivI~tTN~----~e~Ld~AL  363 (504)
                                           ..++|.+...|                + |-.-.-....-+|+|.|.    ...||++|
T Consensus       670 ---------------------~~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nL  728 (3245)
T 3vkg_A          670 ---------------------ERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNL  728 (3245)
T ss_dssp             ---------------------HHHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHH
T ss_pred             ---------------------HHHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHH
Confidence                                 11222222111                1 211011233567888883    45799999


Q ss_pred             hcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          364 IRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       364 lRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ..  || +.|.|..|+.+...+|.-.-.+
T Consensus       729 k~--lF-r~v~m~~Pd~~~i~ei~L~s~G  754 (3245)
T 3vkg_A          729 KK--LF-RSMAMIKPDREMIAQVMLYSQG  754 (3245)
T ss_dssp             HT--TE-EEEECCSCCHHHHHHHHHHTTT
T ss_pred             Hh--hc-EEEEEeCCCHHHHHHHHHHHcc
Confidence            99  99 7899999999888777544333

>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=98.45  E-value=9.5e-07  Score=90.56  Aligned_cols=151  Identities=15%  Similarity=0.162  Sum_probs=93.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCc--EEEEeccccCChHHHHHHHHh-----------------ccCCeEEEEecc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYD--VYDLELTTVQDNSELRSLLID-----------------TSSKSILVIEDI  286 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~--i~~l~~~~~~~~~~l~~l~~~-----------------~~~~~Il~iDei  286 (504)
                      ...+|++|++||||+.+|+++....+..  ++.++|..+....--..+|..                 ......||||||
T Consensus       152 ~~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~~~~lfg~~~g~~tga~~~~~g~~~~a~~gtlfldei  231 (368)
T 3dzd_A          152 KAPVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELAESELFGHEKGAFTGALTRKKGKLELADQGTLFLDEV  231 (368)
T ss_dssp             CSCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTHHHHHHEECSCSSSSCCCCEECHHHHTTTSEEEEETG
T ss_pred             chhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHHHHHhcCccccccCCcccccCChHhhcCCCeEEecCh
Confidence            4569999999999999999998877544  999999988644333344422                 134578999999


Q ss_pred             cccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc-ccCC------CceEEEEecCCC---
Q 037859          287 DCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW-SASG------EERIIVFTTNYV---  356 (504)
Q Consensus       287 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~-~~~~------~~~ivI~tTN~~---  356 (504)
                      +.+                                   +......||..|+.-. ...+      -.+-+|+|||..   
T Consensus       232 ~~l-----------------------------------~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~  276 (368)
T 3dzd_A          232 GEL-----------------------------------DQRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISATNKNLEE  276 (368)
T ss_dssp             GGS-----------------------------------CHHHHHHHHHHHHHSEECCBTCCCBEECCCEEEEEESSCHHH
T ss_pred             hhC-----------------------------------CHHHHHHHHHHHHhCCcccCCCCcceeeeeEEEEecCCCHHH
Confidence            986                                   2235556666664211 0111      134588888843   


Q ss_pred             ----CCCChhhhcCCCce-eEEEecCCCH--HHHHHHHHHhcCcCCcchHHHHhcCcc-CCCCCHHHHHHhh
Q 037859          357 ----DKLDPALIRRGRMD-KHIEMSYCCF--EAFKVLAKNYLDIDSHELYAVIESMPA-ETNMTPADVAENL  420 (504)
Q Consensus       357 ----e~Ld~ALlRpGR~d-~~I~~~~p~~--e~~~~i~~~~l~~~~~~~~~~i~~l~~-~~~~s~a~i~~~l  420 (504)
                          ..+.+.|..  |+. ..|++|....  ++...|+.+|+...    .   ...-. ..++|++-+..+.
T Consensus       277 ~v~~g~fr~dL~~--rl~~~~i~lPpLreR~~Di~~l~~~~l~~~----~---~~~~~~~~~~~~~a~~~L~  339 (368)
T 3dzd_A          277 EIKKGNFREDLYY--RLSVFQIYLPPLRERGKDVILLAEYFLKKF----A---KEYKKNCFELSEETKEYLM  339 (368)
T ss_dssp             HHHTTSSCHHHHH--HHTSEEEECCCGGGSTTHHHHHHHHHHHHH----H---HHTTCCCCCBCHHHHHHHH
T ss_pred             HHHcCCccHHHHH--HhCCeEEeCCChhhchhhHHHHHHHHHHHH----H---HHcCCCCCCcCHHHHHHHH
Confidence                234445555  443 3567776544  67778888876321    1   11111 2468887765443

>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=98.23  E-value=5.2e-06  Score=83.84  Aligned_cols=128  Identities=13%  Similarity=0.136  Sum_probs=83.1

Q ss_pred             HHHHhhcccccccCCCCCcHHHHHHHHHHhc---CC-cEEEEeccccCChHHHHHHHHhc------cCCeEEEEecccc-
Q 037859          220 EIKKDLKKGYLLYGPPGTGKSTMIAAMANFL---NY-DVYDLELTTVQDNSELRSLLIDT------SSKSILVIEDIDC-  288 (504)
Q Consensus       220 ~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l---~~-~i~~l~~~~~~~~~~l~~l~~~~------~~~~Il~iDeiD~-  288 (504)
                      .|...++..||||||+|+||++.++++++.+   +. +...+....   +.+++.++..+      ..+-|++|||+|. 
T Consensus        12 ~l~~~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~plf~~~kvvii~~~~~k   88 (343)
T 1jr3_D           12 QLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP---NTDWNAIFSLCQAMSLFASRQTLLLLLPENG   88 (343)
T ss_dssp             HHHHCCCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCT---TCCHHHHHHHHHHHHHCCSCEEEEEECCSSC
T ss_pred             HHhcCCCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecC---CCCHHHHHHHhcCcCCccCCeEEEEECCCCC
Confidence            3333446789999999999999999998865   33 222222222   23344444332      3678999999987 


Q ss_pred             cccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCC------CCCChh
Q 037859          289 SLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYV------DKLDPA  362 (504)
Q Consensus       289 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~------e~Ld~A  362 (504)
                      +-                                   ....+.|+..++..    .+..++|++|+.+      .++.++
T Consensus        89 l~-----------------------------------~~~~~aLl~~le~p----~~~~~~il~~~~~~~~~~~~k~~~~  129 (343)
T 1jr3_D           89 PN-----------------------------------AAINEQLLTLTGLL----HDDLLLIVRGNKLSKAQENAAWFTA  129 (343)
T ss_dssp             CC-----------------------------------TTHHHHHHHHHTTC----BTTEEEEEEESCCCTTTTTSHHHHH
T ss_pred             CC-----------------------------------hHHHHHHHHHHhcC----CCCeEEEEEcCCCChhhHhhHHHHH
Confidence            41                                   12456677777653    2345666655543      346678


Q ss_pred             hhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          363 LIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       363 LlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      +..  |. ..+.+..++.++....++..+.
T Consensus       130 i~s--r~-~~~~~~~l~~~~l~~~l~~~~~  156 (343)
T 1jr3_D          130 LAN--RS-VQVTCQTPEQAQLPRWVAARAK  156 (343)
T ss_dssp             HTT--TC-EEEEECCCCTTHHHHHHHHHHH
T ss_pred             HHh--Cc-eEEEeeCCCHHHHHHHHHHHHH
Confidence            888  66 5799999988888877776653

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=98.16  E-value=2.2e-06  Score=103.32  Aligned_cols=109  Identities=11%  Similarity=0.135  Sum_probs=66.9

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC---------------------ChHHHHHHHHh---ccCC
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ---------------------DNSELRSLLID---TSSK  278 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~---------------------~~~~l~~l~~~---~~~~  278 (504)
                      +++++||||||||||+||.++|.+.   |..+.+++.....                     ..+++.+.+..   ...+
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            5679999999999999999997764   5566666655321                     12233333332   3689


Q ss_pred             eEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCC
Q 037859          279 SILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNY  355 (504)
Q Consensus       279 ~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~  355 (504)
                      ++||||+++.+++....+..                  .++.......+.++++|..|++.....   .++|.+||.
T Consensus      1507 ~lVVIDsi~al~p~~~~~g~------------------~~~~~~~~~~R~lsqlL~~L~~~~~~~---~v~VI~tNq 1562 (2050)
T 3cmu_A         1507 DVIVVDSVAALTPKAEIEGE------------------IGDSHMGLAARMMSQAMRKLAGNLKQS---NTLLIFINQ 1562 (2050)
T ss_dssp             SEEEESCGGGCCCHHHHHSC------------------TTCCCTTHHHHHHHHHHHHHHHHHHTT---TCEEEEEEC
T ss_pred             CEEEEcChhHhccccccccc------------------ccccccchHHHHHHHHHHHHHHHHHhC---CcEEEEEcc
Confidence            99999999987532111100                  000011113457889999998875433   255556664

>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=98.05  E-value=1.4e-05  Score=73.29  Aligned_cols=26  Identities=27%  Similarity=0.572  Sum_probs=22.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDV  254 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i  254 (504)
                      +.|.||+|+|||||++.|++.++..+
T Consensus         3 i~l~G~nGsGKTTLl~~l~g~l~i~~   28 (178)
T 1ye8_A            3 IIITGEPGVGKTTLVKKIVERLGKRA   28 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGGE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcC
Confidence            67899999999999999999876443

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.73  E-value=0.00023  Score=76.86  Aligned_cols=41  Identities=22%  Similarity=0.216  Sum_probs=33.0

Q ss_pred             ccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHH
Q 037859          208 FDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      -..+++.+...+.|.+.+      .+-++++||+|+|||+||..+++
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~  169 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVR  169 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHh
Confidence            345678888888888777      34478999999999999999865

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.57  E-value=2.4e-05  Score=71.23  Aligned_cols=33  Identities=24%  Similarity=0.382  Sum_probs=29.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      ++.++|.||||||||++++.+|..+++++++.+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~d   37 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDSD   37 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            356889999999999999999999999988653

>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=97.54  E-value=4.6e-05  Score=68.85  Aligned_cols=33  Identities=18%  Similarity=0.305  Sum_probs=29.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      +-++|.||||+||||+++++|..++.+++.++.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~~~~~~~~~   36 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGV   36 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCeEEecc
Confidence            457899999999999999999999988887654

>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=97.53  E-value=0.0003  Score=65.41  Aligned_cols=33  Identities=21%  Similarity=0.300  Sum_probs=27.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT  261 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  261 (504)
                      ++|+||||+|||+++..+|...+.+++.++...
T Consensus        23 ~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~~~   55 (220)
T 2cvh_A           23 TQVYGPYASGKTTLALQTGLLSGKKVAYVDTEG   55 (220)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCSEEEEEESSC
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCcEEEEECCC
Confidence            789999999999999999985566777776544

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.45  E-value=5.5e-05  Score=69.61  Aligned_cols=30  Identities=20%  Similarity=0.260  Sum_probs=22.2

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDL  257 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l  257 (504)
                      -++++||||+|||+++..++..+   +.+++.+
T Consensus         5 i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~   37 (184)
T 2orw_A            5 LTVITGPMYSGKTTELLSFVEIYKLGKKKVAVF   37 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            36789999999999987666543   5555443

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.45  E-value=4.4e-05  Score=70.72  Aligned_cols=32  Identities=38%  Similarity=0.427  Sum_probs=28.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +.++|.|||||||||+++++|..+++++++.+
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~d   57 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFARKLNVPFIDLD   57 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHTCCEEEHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcCCCEEcch
Confidence            45889999999999999999999999887653

>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=97.43  E-value=0.0003  Score=76.12  Aligned_cols=50  Identities=24%  Similarity=0.254  Sum_probs=38.0

Q ss_pred             ccccChhHHHHHHHhhcc-cccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          210 TLAMETKKKEEIKKDLKK-GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l~r-g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      ...+.+.+++.+...+.. -+++.||||||||+++.+++..+   +.++..+..
T Consensus       187 ~~~L~~~Q~~Av~~~~~~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~Ap  240 (574)
T 3e1s_A          187 RKGLSEEQASVLDQLAGHRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAP  240 (574)
T ss_dssp             TTTCCHHHHHHHHHHTTCSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             cCCCCHHHHHHHHHHHhCCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecC
Confidence            445778888888777644 47789999999999999998755   666665533

>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=97.38  E-value=7.3e-05  Score=66.83  Aligned_cols=31  Identities=29%  Similarity=0.291  Sum_probs=27.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      -++|.||||+||||+++.+|..+++++++.+
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            3678999999999999999999998887655

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.37  E-value=6.1e-05  Score=68.10  Aligned_cols=30  Identities=33%  Similarity=0.413  Sum_probs=27.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .++|.||||+|||+++++||..+++++++.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~~~~d~   35 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDLVFLDS   35 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            478999999999999999999999887764

>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=97.37  E-value=0.0012  Score=77.13  Aligned_cols=57  Identities=21%  Similarity=0.216  Sum_probs=41.6

Q ss_pred             CccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHh-------cCCcEEEEeccc
Q 037859          205 PATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANF-------LNYDVYDLELTT  261 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~-------l~~~i~~l~~~~  261 (504)
                      |.....+++.++..++|.+.+      .+-+.|+|++|+|||+||+.+++.       +...++.++++.
T Consensus       120 p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~  189 (1249)
T 3sfz_A          120 PQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGK  189 (1249)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCS
T ss_pred             CCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECC
Confidence            444556788888888888877      334779999999999999998875       222355665544

>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=97.35  E-value=7.2e-05  Score=67.88  Aligned_cols=32  Identities=28%  Similarity=0.413  Sum_probs=28.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++.++|+||||+|||++++++|..+++.++..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~   42 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSGLKYINV   42 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhCCeEEEH
Confidence            35689999999999999999999999887754

>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=97.33  E-value=7.9e-05  Score=67.77  Aligned_cols=31  Identities=35%  Similarity=0.514  Sum_probs=27.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      -++|.|+||+|||++++.+|..+|+++++.+
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id~D   34 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALGVGLLDTD   34 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCEEeCc
Confidence            4789999999999999999999999987653

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.33  E-value=7.8e-05  Score=66.84  Aligned_cols=32  Identities=28%  Similarity=0.459  Sum_probs=28.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      ..++|.|+||||||++++.+|..+|+++++.+
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg~~~id~D   39 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALKLEVLDTD   39 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            35789999999999999999999999988753

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.31  E-value=0.00012  Score=65.67  Aligned_cols=30  Identities=43%  Similarity=0.713  Sum_probs=26.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      .-+.|.|||||||||+++.+|..++.++++
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~~~~id   34 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYD   34 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEe
Confidence            458899999999999999999999986654

>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=97.30  E-value=0.00042  Score=72.78  Aligned_cols=57  Identities=23%  Similarity=0.259  Sum_probs=36.8

Q ss_pred             ecCCCccccccccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CC-cEEEEec
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NY-DVYDLEL  259 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~-~i~~l~~  259 (504)
                      |-..|.+|+.+  .+++++.+...+      ...+++.||||||||+++.+++..+   +. .++.+..
T Consensus        16 ~~~~p~~~~~L--n~~Q~~av~~~~~~i~~~~~~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~a~   82 (459)
T 3upu_A           16 PRGSHMTFDDL--TEGQKNAFNIVMKAIKEKKHHVTINGPAGTGATTLTKFIIEALISTGETGIILAAP   82 (459)
T ss_dssp             -----CCSSCC--CHHHHHHHHHHHHHHHSSSCEEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEEES
T ss_pred             cccCCCccccC--CHHHHHHHHHHHHHHhcCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEecC
Confidence            44456777765  666666555433      2368899999999999999999877   33 4555433

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.24  E-value=0.00013  Score=70.62  Aligned_cols=32  Identities=31%  Similarity=0.483  Sum_probs=28.4

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      -+++.||||||||+++++||..++..++..|.
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            36789999999999999999999998887654

>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=97.24  E-value=0.00011  Score=65.95  Aligned_cols=30  Identities=27%  Similarity=0.442  Sum_probs=27.2

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      -++|.|+||+|||++++.+|..+++++++.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id~   33 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARALGYEFVDT   33 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEcc
Confidence            578999999999999999999999887764

>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=97.24  E-value=9.5e-05  Score=67.59  Aligned_cols=31  Identities=29%  Similarity=0.507  Sum_probs=27.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh-cCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF-LNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~-l~~~i~~l  257 (504)
                      ..++|+|+||||||++++.+|.. +|++++++
T Consensus        11 ~~I~l~G~~GsGKSTv~~~La~~l~g~~~id~   42 (184)
T 1y63_A           11 INILITGTPGTGKTSMAEMIAAELDGFQHLEV   42 (184)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHSTTEEEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCCEEeeH
Confidence            34889999999999999999999 78777764

>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=97.24  E-value=9e-05  Score=67.65  Aligned_cols=30  Identities=30%  Similarity=0.409  Sum_probs=26.8

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      .-++|.||||+||||+++.+|..++++++.
T Consensus         6 ~~I~l~G~~GsGKST~~~~L~~~l~~~~i~   35 (193)
T 2rhm_A            6 ALIIVTGHPATGKTTLSQALATGLRLPLLS   35 (193)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCeEec
Confidence            457899999999999999999999988765

>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=97.19  E-value=0.00013  Score=64.97  Aligned_cols=29  Identities=28%  Similarity=0.354  Sum_probs=25.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      -++|.||||+||||+++.+ ..+|++++.+
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            4678999999999999999 8899887764

>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=0.00014  Score=67.28  Aligned_cols=31  Identities=35%  Similarity=0.505  Sum_probs=27.6

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .-++|.||||+||||+++.+|..++++++..
T Consensus        21 ~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           21 MRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            3478999999999999999999999887765

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.16  E-value=0.00013  Score=66.39  Aligned_cols=31  Identities=26%  Similarity=0.380  Sum_probs=27.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .-++|.|+||+||||+++.+|..+++++++.
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   34 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEKYGYTHLSA   34 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            4578999999999999999999999876653

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.14  E-value=0.00016  Score=64.49  Aligned_cols=29  Identities=34%  Similarity=0.417  Sum_probs=26.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|.|+||+|||++++.+|..+++++++.
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~l~~~~i~~   31 (168)
T 2pt5_A            3 IYLIGFMCSGKSTVGSLLSRSLNIPFYDV   31 (168)
T ss_dssp             EEEESCTTSCHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            67899999999999999999999888764

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.13  E-value=0.00028  Score=69.48  Aligned_cols=34  Identities=26%  Similarity=0.442  Sum_probs=27.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      +.-++|.||||+||||++++++..++...+.++.
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~   66 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDN   66 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEec
Confidence            3458899999999999999999988544555554

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.12  E-value=0.00019  Score=66.30  Aligned_cols=31  Identities=26%  Similarity=0.383  Sum_probs=27.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +-++|.||||+||||+++.|+..++..+++.
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~lg~~~i~~   49 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEACGYPFIEG   49 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHHHTCCEEEG
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCEEEeC
Confidence            4688999999999999999999998776654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.12  E-value=0.00014  Score=66.14  Aligned_cols=30  Identities=30%  Similarity=0.602  Sum_probs=26.2

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      -++|.||||+||||+++.+|..+++++++.
T Consensus         6 ~I~l~G~~GsGKST~~~~La~~l~~~~i~~   35 (186)
T 3cm0_A            6 AVIFLGPPGAGKGTQASRLAQELGFKKLST   35 (186)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCEEECH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEecH
Confidence            478999999999999999999999776644

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.10  E-value=0.00016  Score=66.13  Aligned_cols=31  Identities=23%  Similarity=0.373  Sum_probs=27.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .-++|.||||+||||+++.+|..+++++++.
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~   40 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQKYGYTHLST   40 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            3478999999999999999999999887765

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.10  E-value=0.00012  Score=65.95  Aligned_cols=28  Identities=32%  Similarity=0.322  Sum_probs=23.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHH-hcCCcE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN-FLNYDV  254 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~-~l~~~i  254 (504)
                      +-++|.||||+||||+++.++. .+++.+
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~~~~~~~~   31 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYN   31 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEE
T ss_pred             eEEEEecCCCCCHHHHHHHHHhhcCCcEE
Confidence            4578999999999999999998 555443

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.10  E-value=0.0012  Score=80.00  Aligned_cols=67  Identities=18%  Similarity=0.302  Sum_probs=48.1

Q ss_pred             hhccc--ccccCCCCCcHHHHHHHHHHh---cCCcEEEEeccccCCh------------------------HHHHHHHHh
Q 037859          224 DLKKG--YLLYGPPGTGKSTMIAAMANF---LNYDVYDLELTTVQDN------------------------SELRSLLID  274 (504)
Q Consensus       224 ~l~rg--~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~~~~~------------------------~~l~~l~~~  274 (504)
                      .+++|  +||+||||||||+|+.+++.+   .|.+.+++++......                        ..+...+..
T Consensus      1077 gi~~g~~vll~G~~GtGKT~la~~~~~ea~k~Ge~~~Fit~ee~~~~L~a~~~G~dl~~l~~~~pd~~e~~~~i~~~l~~ 1156 (2050)
T 3cmu_A         1077 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR 1156 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcCCCcEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEccccHHHHHHHHcCCChhHheeecCcchHHHHHHHHHHHH
Confidence            45444  999999999999999998754   3777888877653211                        122334444


Q ss_pred             ccCCeEEEEecccccc
Q 037859          275 TSSKSILVIEDIDCSL  290 (504)
Q Consensus       275 ~~~~~Il~iDeiD~~~  290 (504)
                      ...+.+|+||++..+.
T Consensus      1157 ~~~~dlvVIDsl~~L~ 1172 (2050)
T 3cmu_A         1157 SGAVDVIVVDSVAALT 1172 (2050)
T ss_dssp             HTCCSEEEESCGGGCC
T ss_pred             hCCCCEEEECCccccc
Confidence            5679999999999874

>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=97.09  E-value=0.0014  Score=66.56  Aligned_cols=65  Identities=9%  Similarity=0.180  Sum_probs=43.4

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC---------------------ChHHHHHHHH---hcc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ---------------------DNSELRSLLI---DTS  276 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~---------------------~~~~l~~l~~---~~~  276 (504)
                      ++|  ++|+||||+|||+|+..+|..+   +..+.+++.....                     +..++...+.   ...
T Consensus        59 ~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~~~  138 (356)
T 3hr8_A           59 PRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGEQALEIVDELVRSG  138 (356)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHTS
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchHHHHHcCCchhhhhhhhccCHHHHHHHHHHHhhhc
Confidence            445  7899999999999999998764   5566666654321                     1122222222   124


Q ss_pred             CCeEEEEecccccc
Q 037859          277 SKSILVIEDIDCSL  290 (504)
Q Consensus       277 ~~~Il~iDeiD~~~  290 (504)
                      .+.+++||.+..++
T Consensus       139 ~~dlvVIDSi~~l~  152 (356)
T 3hr8_A          139 VVDLIVVDSVAALV  152 (356)
T ss_dssp             CCSEEEEECTTTCC
T ss_pred             CCCeEEehHhhhhc
Confidence            67899999998865

>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=97.08  E-value=0.00015  Score=65.94  Aligned_cols=24  Identities=25%  Similarity=0.340  Sum_probs=22.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -++|.||||+||||+++.+|..++
T Consensus         5 ~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            5 VVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999999887

>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=97.07  E-value=0.00021  Score=66.77  Aligned_cols=29  Identities=24%  Similarity=0.312  Sum_probs=26.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|.||||+||||+++.+|..++.+++..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3dl0_A            3 LVLMGLPGAGKGTQGERIVEKYGIPHIST   31 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            67899999999999999999999887765

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.07  E-value=0.00017  Score=66.04  Aligned_cols=32  Identities=22%  Similarity=0.349  Sum_probs=27.7

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +.-++|.||||+||||+++.+|..+++++++.
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~   43 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYGFTHLST   43 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            34588999999999999999999999777654

>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=97.04  E-value=0.00018  Score=65.38  Aligned_cols=31  Identities=23%  Similarity=0.355  Sum_probs=27.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +-++|.|+|||||||+++.+|..++.++++.
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~~l~~~~i~~   37 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVRDFGWVHLSA   37 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEeeH
Confidence            4578999999999999999999999877765

>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=97.03  E-value=0.00022  Score=66.93  Aligned_cols=30  Identities=27%  Similarity=0.459  Sum_probs=26.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      -++|.||||+||||+++.+|..++++++..
T Consensus         6 ~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   35 (220)
T 1aky_A            6 RMVLIGPPGAGKGTQAPNLQERFHAAHLAT   35 (220)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCceEEeh
Confidence            478899999999999999999999877654

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.02  E-value=0.00023  Score=66.38  Aligned_cols=29  Identities=24%  Similarity=0.346  Sum_probs=26.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|.||||+||||+++.+|..++.+++..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3fb4_A            3 IVLMGLPGAGKGTQAEQIIEKYEIPHIST   31 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEeeH
Confidence            67899999999999999999999887765

>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=97.01  E-value=0.00026  Score=63.67  Aligned_cols=29  Identities=34%  Similarity=0.539  Sum_probs=25.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      -++|.||||+||||+++.++..+|..+++
T Consensus        10 ~i~l~G~~GsGKSTl~~~l~~~~g~~~i~   38 (175)
T 1knq_A           10 IYVLMGVSGSGKSAVASEVAHQLHAAFLD   38 (175)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhhCcEEEe
Confidence            47899999999999999999998876554

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.00  E-value=0.00023  Score=67.26  Aligned_cols=31  Identities=19%  Similarity=0.410  Sum_probs=27.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .-++|.||||+||||+++.||..+++.+++.
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   38 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITTHFELKHLSS   38 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHSSSEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCeEEec
Confidence            3478999999999999999999999877654

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.99  E-value=0.00027  Score=65.28  Aligned_cols=31  Identities=19%  Similarity=0.319  Sum_probs=27.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +-++|.|||||||||+++.+|..+++++++.
T Consensus        16 ~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~~   46 (203)
T 1ukz_A           16 SVIFVLGGPGAGKGTQCEKLVKDYSFVHLSA   46 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCceEEeH
Confidence            4578999999999999999999999877664

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.99  E-value=0.00035  Score=67.27  Aligned_cols=36  Identities=19%  Similarity=0.231  Sum_probs=28.7

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT  261 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  261 (504)
                      +.-++|.||||+||||+++.++..++...+.++...
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~~l~~~~~~~~~D~   67 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDS   67 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHHHTTTCCEEECGGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCCcEEEecHH
Confidence            345889999999999999999999986555555443

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.98  E-value=0.00024  Score=64.26  Aligned_cols=29  Identities=21%  Similarity=0.227  Sum_probs=22.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      .-++|.|+||+||||+++.+|..++.+++
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~~l~~~~i   34 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHERLPGSFV   34 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHHHSTTCEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            34789999999999999999999999876

>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=96.97  E-value=0.0018  Score=60.00  Aligned_cols=110  Identities=12%  Similarity=0.202  Sum_probs=68.3

Q ss_pred             cc-ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecccc--CC-hHH-----------------------------HHH
Q 037859          227 KG-YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTV--QD-NSE-----------------------------LRS  270 (504)
Q Consensus       227 rg-~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~--~~-~~~-----------------------------l~~  270 (504)
                      +| +++|+++|.|||++|-++|-..   |+.++.+.+..-  .. ...                             ...
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~~  107 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMA  107 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHHH
Confidence            45 6789999999999999997654   788887754331  10 011                             111


Q ss_pred             HHHh----c--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCC
Q 037859          271 LLID----T--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG  344 (504)
Q Consensus       271 l~~~----~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~  344 (504)
                      .+..    .  ...-+|++||+-..+..                                .-.....++..+.    ...
T Consensus       108 ~l~~a~~~l~~~~yDlvILDEi~~al~~--------------------------------g~l~~~ev~~~l~----~Rp  151 (196)
T 1g5t_A          108 VWQHGKRMLADPLLDMVVLDELTYMVAY--------------------------------DYLPLEEVISALN----ARP  151 (196)
T ss_dssp             HHHHHHHHTTCTTCSEEEEETHHHHHHT--------------------------------TSSCHHHHHHHHH----TSC
T ss_pred             HHHHHHHHHhcCCCCEEEEeCCCccccC--------------------------------CCCCHHHHHHHHH----hCc
Confidence            1111    1  34679999999654210                                0112233444444    234


Q ss_pred             CceEEEEecCCCCCCChhhhcCCCceeEEEecC
Q 037859          345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSY  377 (504)
Q Consensus       345 ~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~  377 (504)
                      +..-+|+|+|.+   +++|+.  .-|.+=+|..
T Consensus       152 ~~~~vIlTGr~a---p~~l~e--~AD~VTem~~  179 (196)
T 1g5t_A          152 GHQTVIITGRGC---HRDILD--LADTVSELRP  179 (196)
T ss_dssp             TTCEEEEECSSC---CHHHHH--HCSEEEECCC
T ss_pred             CCCEEEEECCCC---cHHHHH--hCcceeeecc
Confidence            556789999875   789998  8888877754

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.96  E-value=0.00025  Score=66.61  Aligned_cols=29  Identities=24%  Similarity=0.384  Sum_probs=26.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|.||||+||||+++.||..++++++..
T Consensus         8 I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            8 LILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            78899999999999999999999887764

>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=96.95  E-value=0.017  Score=61.93  Aligned_cols=36  Identities=22%  Similarity=0.321  Sum_probs=30.2

Q ss_pred             cChhHHHHHHHhh-------cccccccCCCCCcHHHHHHHHHH
Q 037859          213 METKKKEEIKKDL-------KKGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       213 ~~~~~k~~i~~~l-------~rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      +.+..+++|.+.+       .+-+.++|++|+|||+||+.+++
T Consensus       132 GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          132 IREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             CCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHH
Confidence            6777788888777       24477999999999999999997

>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=96.94  E-value=0.00029  Score=66.84  Aligned_cols=31  Identities=29%  Similarity=0.387  Sum_probs=27.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .-++|.|+|||||||+++.||..++++++..
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   47 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   47 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCceecH
Confidence            3588999999999999999999999876654

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=96.93  E-value=0.0061  Score=69.55  Aligned_cols=50  Identities=18%  Similarity=0.327  Sum_probs=35.9

Q ss_pred             ccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHh------cCCcEEEEeccc
Q 037859          212 AMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANF------LNYDVYDLELTT  261 (504)
Q Consensus       212 ~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~------l~~~i~~l~~~~  261 (504)
                      ++.+...++|.+.+     .+-+.++||+|.|||+||+.+++.      +...++-++++.
T Consensus       131 VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~  191 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKN  191 (1221)
T ss_dssp             CCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCC
T ss_pred             CCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCC
Confidence            56666777777766     245789999999999999999853      344455555543

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.92  E-value=0.00035  Score=63.70  Aligned_cols=31  Identities=39%  Similarity=0.524  Sum_probs=25.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      -+.|.||||+||||+++.||+.++...+.++
T Consensus        11 ~i~l~G~~GsGKSTl~~~La~~~~~g~i~i~   41 (191)
T 1zp6_A           11 ILLLSGHPGSGKSTIAEALANLPGVPKVHFH   41 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTCSSSCEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHhccCCCeEEEc
Confidence            3789999999999999999998766655554

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.89  E-value=0.00053  Score=62.39  Aligned_cols=31  Identities=26%  Similarity=0.317  Sum_probs=27.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      +.|.|+||+||||+++.++..+   |++++..+-
T Consensus         3 I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~d~   36 (195)
T 2pbr_A            3 IAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYRE   36 (195)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            5789999999999999999988   888887753

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.87  E-value=0.00042  Score=69.32  Aligned_cols=34  Identities=24%  Similarity=0.483  Sum_probs=30.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      ++.++|.||+|||||+++.++|..++..++.+|.
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            3468899999999999999999999988888754

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.86  E-value=0.00049  Score=63.60  Aligned_cols=30  Identities=20%  Similarity=0.410  Sum_probs=25.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      .-+.|.||||+||||+++.||+.+|..+++
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~~~g~~~i~   59 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVADETGLEFAE   59 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHCCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhhCCeEEc
Confidence            347889999999999999999998765443

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.86  E-value=0.00024  Score=66.77  Aligned_cols=30  Identities=17%  Similarity=0.255  Sum_probs=26.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      .-++|.||||+||||+++.||..++...++
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~~l~~~~i~   35 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKTKYQLAHIS   35 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            457899999999999999999999976544

>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=96.86  E-value=0.00034  Score=65.36  Aligned_cols=29  Identities=21%  Similarity=0.251  Sum_probs=26.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|.||||+||||+++.+|..++++++..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~g~~~i~~   31 (214)
T 1e4v_A            3 IILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            67899999999999999999999877664

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=96.86  E-value=0.0074  Score=57.08  Aligned_cols=33  Identities=21%  Similarity=0.213  Sum_probs=26.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      .+++.|+||||||+++-++|..+   |+++..+++.
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D   43 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVE   43 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeC
Confidence            37889999999999999998775   7777666553

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.81  E-value=0.00067  Score=61.32  Aligned_cols=30  Identities=33%  Similarity=0.598  Sum_probs=27.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      +.|.|++|+||||+++.++..+   |++++.++
T Consensus         8 i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d   40 (179)
T 2pez_A            8 VWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   40 (179)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhCCCcEEEEC
Confidence            6789999999999999999998   88888775

>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=96.81  E-value=0.0018  Score=65.56  Aligned_cols=65  Identities=15%  Similarity=0.236  Sum_probs=43.4

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC---------------------ChHHHHHHHH---hcc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ---------------------DNSELRSLLI---DTS  276 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~---------------------~~~~l~~l~~---~~~  276 (504)
                      ++|  ++++||||+|||+|+..+|...   +..+.+++.....                     +..++..++.   ...
T Consensus        59 ~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~~~  138 (349)
T 2zr9_A           59 PRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVRSG  138 (349)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTT
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHhcC
Confidence            445  8999999999999999988654   5566666654311                     1122222222   224


Q ss_pred             CCeEEEEecccccc
Q 037859          277 SKSILVIEDIDCSL  290 (504)
Q Consensus       277 ~~~Il~iDeiD~~~  290 (504)
                      .+.+|+||++..++
T Consensus       139 ~~~lIVIDsl~~l~  152 (349)
T 2zr9_A          139 ALDIIVIDSVAALV  152 (349)
T ss_dssp             CCSEEEEECGGGCC
T ss_pred             CCCEEEEcChHhhc
Confidence            58999999999875

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.81  E-value=0.001  Score=72.89  Aligned_cols=54  Identities=30%  Similarity=0.424  Sum_probs=38.9

Q ss_pred             cccccccChhHHHHHHHhh-ccc-ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          207 TFDTLAMETKKKEEIKKDL-KKG-YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l-~rg-~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      .|-+-.+++.++++|...+ .++ .|+.||||||||+++..+..++   +..+..+..+
T Consensus       184 ~~~~~~LN~~Q~~AV~~al~~~~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~T  242 (646)
T 4b3f_X          184 TFFNTCLDTSQKEAVLFALSQKELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPS  242 (646)
T ss_dssp             CCSSTTCCHHHHHHHHHHHHCSSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             cccCCCCCHHHHHHHHHHhcCCCceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEcCc
Confidence            3334468999999999888 344 6789999999998777665544   5566655444

>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=96.79  E-value=0.0015  Score=65.24  Aligned_cols=34  Identities=12%  Similarity=0.181  Sum_probs=27.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---------CCcEEEEeccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---------NYDVYDLELTT  261 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~  261 (504)
                      -++++||||+|||+++..+|...         +..+++++...
T Consensus       109 i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~  151 (324)
T 2z43_A          109 MTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEG  151 (324)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             EEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            37899999999999999998764         45677776654

>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=96.78  E-value=0.00044  Score=63.88  Aligned_cols=29  Identities=34%  Similarity=0.363  Sum_probs=25.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +.|.||+||||||+++.+|+ +|+++++.+
T Consensus         4 i~i~G~~GsGKSTl~~~L~~-~g~~~i~~d   32 (204)
T 2if2_A            4 IGLTGNIGCGKSTVAQMFRE-LGAYVLDAD   32 (204)
T ss_dssp             EEEEECTTSSHHHHHHHHHH-TTCEEEEHH
T ss_pred             EEEECCCCcCHHHHHHHHHH-CCCEEEEcc
Confidence            67899999999999999999 888877654

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.77  E-value=0.00056  Score=64.55  Aligned_cols=30  Identities=23%  Similarity=0.471  Sum_probs=26.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      ++-++|.||||+||+|.|+.||..++++.+
T Consensus        29 ~kiI~llGpPGsGKgTqa~~L~~~~g~~hI   58 (217)
T 3umf_A           29 AKVIFVLGGPGSGKGTQCEKLVQKFHFNHL   58 (217)
T ss_dssp             CEEEEEECCTTCCHHHHHHHHHHHHCCEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHCCceE
Confidence            456888999999999999999999987644

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.77  E-value=0.00062  Score=64.20  Aligned_cols=29  Identities=24%  Similarity=0.425  Sum_probs=25.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|.||||+||||+++.+|..++++++..
T Consensus         3 I~l~G~~GsGKsT~a~~La~~lg~~~i~~   31 (223)
T 2xb4_A            3 ILIFGPNGSGKGTQGNLVKDKYSLAHIES   31 (223)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeEEch
Confidence            67899999999999999999999766554

>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=96.77  E-value=0.0038  Score=63.53  Aligned_cols=63  Identities=13%  Similarity=0.203  Sum_probs=43.2

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC---------------------ChHHHHHHHHh---ccCCeE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ---------------------DNSELRSLLID---TSSKSI  280 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~---------------------~~~~l~~l~~~---~~~~~I  280 (504)
                      -++|+||||+|||+|+..+|...   +.++.++++..-.                     +...+...+..   .....+
T Consensus        76 li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~~~~~~l  155 (366)
T 1xp8_A           76 ITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVRSGAIDV  155 (366)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCCSE
T ss_pred             EEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHhcCCCCE
Confidence            38899999999999999888654   5677777654311                     11233333322   245789


Q ss_pred             EEEecccccc
Q 037859          281 LVIEDIDCSL  290 (504)
Q Consensus       281 l~iDeiD~~~  290 (504)
                      ||||.+..+.
T Consensus       156 VVIDsl~~l~  165 (366)
T 1xp8_A          156 VVVDSVAALT  165 (366)
T ss_dssp             EEEECTTTCC
T ss_pred             EEEeChHHhc
Confidence            9999999874

>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=96.77  E-value=0.00047  Score=66.05  Aligned_cols=31  Identities=26%  Similarity=0.431  Sum_probs=27.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .-++|.||||+||||+++.++..++...+..
T Consensus        30 ~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~   60 (243)
T 3tlx_A           30 GRYIFLGAPGSGKGTQSLNLKKSHCYCHLST   60 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            3488999999999999999999998877754

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.75  E-value=0.0011  Score=61.23  Aligned_cols=30  Identities=23%  Similarity=0.377  Sum_probs=25.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCc--EEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYD--VYDL  257 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~--i~~l  257 (504)
                      -++|.||||+||||+++.+|..++..  ++..
T Consensus         6 ~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~   37 (213)
T 2plr_A            6 LIAFEGIDGSGKSSQATLLKDWIELKRDVYLT   37 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTTSCEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHhhcCCEEEe
Confidence            47889999999999999999998763  5443

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.75  E-value=0.00063  Score=62.39  Aligned_cols=27  Identities=33%  Similarity=0.739  Sum_probs=24.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      +.|.|+||+||||+++.+|..++..++
T Consensus         3 I~i~G~~GsGKsT~~~~L~~~l~~~~~   29 (205)
T 2jaq_A            3 IAIFGTVGAGKSTISAEISKKLGYEIF   29 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHCCEEE
T ss_pred             EEEECCCccCHHHHHHHHHHhcCCcEE
Confidence            678999999999999999999998655

>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=96.74  E-value=0.0025  Score=60.67  Aligned_cols=48  Identities=19%  Similarity=0.245  Sum_probs=36.0

Q ss_pred             cccChhHHHHHHHhh-cccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          211 LAMETKKKEEIKKDL-KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l-~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +.+.+.+++.+...+ .+.++++||+|+|||.++.+++..++..++.+.
T Consensus        92 ~~l~~~Q~~ai~~~~~~~~~ll~~~tG~GKT~~a~~~~~~~~~~~liv~  140 (237)
T 2fz4_A           92 ISLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAINELSTPTLIVV  140 (237)
T ss_dssp             CCCCHHHHHHHHHHTTTSEEEEEESSSTTHHHHHHHHHHHSCSCEEEEE
T ss_pred             CCcCHHHHHHHHHHHhCCCEEEEeCCCCCHHHHHHHHHHHcCCCEEEEe
Confidence            455666666665555 334899999999999999999988877666553

>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=96.73  E-value=0.00069  Score=62.29  Aligned_cols=33  Identities=15%  Similarity=0.173  Sum_probs=28.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc-CCcEEEEecc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL-NYDVYDLELT  260 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~~~  260 (504)
                      -+.|.||||+||||+++.+|..+ |++++.++..
T Consensus         6 ~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~~~~   39 (204)
T 2v54_A            6 LIVFEGLDKSGKTTQCMNIMESIPANTIKYLNFP   39 (204)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTSCGGGEEEEESS
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHCCCceEEEecC
Confidence            36789999999999999999999 5888776543

>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=96.73  E-value=0.00069  Score=63.47  Aligned_cols=29  Identities=38%  Similarity=0.620  Sum_probs=25.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      -+.|.|||||||||+++.+|+.+++++++
T Consensus         7 ~i~i~G~~GsGKSTl~~~L~~~~g~~~~d   35 (227)
T 1cke_A            7 VITIDGPSGAGKGTLCKAMAEALQWHLLD   35 (227)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            47789999999999999999999987665

>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=96.69  E-value=0.00077  Score=63.08  Aligned_cols=27  Identities=30%  Similarity=0.527  Sum_probs=24.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      ++|.||||+||+|.|+.||..+|++.+
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~g~~~i   29 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEKGFVHI   29 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEE
Confidence            578899999999999999999987654

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.68  E-value=0.00065  Score=65.55  Aligned_cols=32  Identities=34%  Similarity=0.552  Sum_probs=28.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      .-+.|.||||+||||+++.+|..+++++++.+
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg~~~~d~d   80 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLGYTFFDCD   80 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCcEEeCc
Confidence            35889999999999999999999999888753

>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=96.67  E-value=0.00097  Score=61.58  Aligned_cols=32  Identities=31%  Similarity=0.401  Sum_probs=25.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      .-+.|.||+|+||||++++||+.+   |...+.++
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d   60 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILD   60 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEec
Confidence            347789999999999999999988   44434444

>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=96.66  E-value=0.00062  Score=62.97  Aligned_cols=30  Identities=27%  Similarity=0.340  Sum_probs=25.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      -+.|.|||||||||+++.+|+ +|+++++.+
T Consensus         4 ~i~l~G~~GsGKST~~~~La~-lg~~~id~d   33 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD-LGVPLVDAD   33 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT-TTCCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcccchH
Confidence            367899999999999999998 888877643

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.66  E-value=0.00046  Score=62.63  Aligned_cols=23  Identities=39%  Similarity=0.683  Sum_probs=21.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      ++|.||||+||||+++.++..++
T Consensus         4 I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            4 GIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            67899999999999999999875

>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=96.65  E-value=0.016  Score=62.07  Aligned_cols=43  Identities=5%  Similarity=0.045  Sum_probs=35.6

Q ss_pred             CCceEEEEecCCCC--CCChhhhcCCCceeEEEecCCCHHHHHHHHH
Q 037859          344 GEERIIVFTTNYVD--KLDPALIRRGRMDKHIEMSYCCFEAFKVLAK  388 (504)
Q Consensus       344 ~~~~ivI~tTN~~e--~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~  388 (504)
                      .-++.+|++|.++.  .|+..+..  -|...|.+...+..+.+.++.
T Consensus       376 a~GIhLIlaTQRPs~d~I~~~Ira--n~~~RI~lrv~s~~Dsr~ILd  420 (574)
T 2iut_A          376 AAGIHLILATQRPSVDVITGLIKA--NIPTRIAFQVSSKIDSRTILD  420 (574)
T ss_dssp             TTTEEEEEEESCCCTTTSCHHHHH--TCCEEEEECCSCHHHHHHHHS
T ss_pred             hCCeEEEEEecCcccccccHHHHh--hhccEEEEEcCCHHHHHHhcC
Confidence            35588999999987  78888887  788899999999888877763

>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=96.63  E-value=0.00071  Score=62.33  Aligned_cols=31  Identities=23%  Similarity=0.252  Sum_probs=27.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      -+.|.||||+|||++++.+|..+++++++.+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~d~d   34 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYLSSG   34 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceeccc
Confidence            4678999999999999999999998888754

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=96.63  E-value=0.0031  Score=59.71  Aligned_cols=61  Identities=11%  Similarity=0.252  Sum_probs=39.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccc-------c-------------CChHHHHHHHHhc---cCCeEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTT-------V-------------QDNSELRSLLIDT---SSKSILV  282 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~-------~-------------~~~~~l~~l~~~~---~~~~Il~  282 (504)
                      ++++||||+|||+++..+|..+   +..++.+....       +             ....++...+.+.   ..+.+|+
T Consensus        15 ~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~~~~~dvVi   94 (223)
T 2b8t_A           15 EFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKVIG   94 (223)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCEEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHhcCCCccccccCCHHHHHHHHHHHhhCCCCCEEE
Confidence            6778999999999998887665   55666552211       1             1112344444332   2478999


Q ss_pred             Eeccccc
Q 037859          283 IEDIDCS  289 (504)
Q Consensus       283 iDeiD~~  289 (504)
                      |||+..+
T Consensus        95 IDEaQ~l  101 (223)
T 2b8t_A           95 IDEVQFF  101 (223)
T ss_dssp             ECSGGGS
T ss_pred             EecCccC
Confidence            9999864

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.63  E-value=0.001  Score=64.23  Aligned_cols=31  Identities=42%  Similarity=0.503  Sum_probs=26.4

Q ss_pred             cccccCCCCCcHHHHHHHHHHh---cCCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF---LNYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~  258 (504)
                      -++|.|+||+||||+++.++..   .|++++.++
T Consensus         6 lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~   39 (260)
T 3a4m_A            6 LIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLG   39 (260)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEEC
Confidence            4789999999999999999998   688777444

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=96.63  E-value=0.0036  Score=64.53  Aligned_cols=33  Identities=21%  Similarity=0.190  Sum_probs=24.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---------CCcEEEEeccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---------NYDVYDLELTT  261 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~  261 (504)
                      ++|+||||||||+|+..+|-..         +...++++...
T Consensus       181 ~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~  222 (400)
T 3lda_A          181 TELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEG  222 (400)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             EEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCC
Confidence            7899999999999999776332         23466665543

>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=96.59  E-value=0.0038  Score=62.91  Aligned_cols=33  Identities=12%  Similarity=0.125  Sum_probs=26.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---------CCcEEEEeccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---------NYDVYDLELTT  261 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~  261 (504)
                      ++|+||||+|||+|+..+|...         +..+++++...
T Consensus       125 ~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A          125 TEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             EEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            7899999999999999998862         45677776654

>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=0.0008  Score=62.20  Aligned_cols=31  Identities=29%  Similarity=0.310  Sum_probs=27.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      -+.|.|++||||||+++.+|..+|+++++.|
T Consensus        14 iIgltG~~GSGKSTva~~L~~~lg~~vid~D   44 (192)
T 2grj_A           14 VIGVTGKIGTGKSTVCEILKNKYGAHVVNVD   44 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCEEEECc
Confidence            3678999999999999999999998887754

>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=96.58  E-value=0.001  Score=63.43  Aligned_cols=31  Identities=32%  Similarity=0.383  Sum_probs=27.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .-+.|.||||+|||++++.||..+++++++.
T Consensus        10 ~~i~i~G~~GsGKsTla~~la~~lg~~~~d~   40 (233)
T 3r20_A           10 LVVAVDGPAGTGKSSVSRGLARALGARYLDT   40 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCcccC
Confidence            3578899999999999999999999877654

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.58  E-value=0.0035  Score=63.59  Aligned_cols=64  Identities=11%  Similarity=0.209  Sum_probs=44.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC---------------------ChHHHHHHHH---hccCCe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ---------------------DNSELRSLLI---DTSSKS  279 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~---------------------~~~~l~~l~~---~~~~~~  279 (504)
                      +-++++||||+|||+||..+|..+   +.++.++++....                     +...+..++.   ....+.
T Consensus        64 ~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~~~~~~  143 (356)
T 1u94_A           64 RIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVD  143 (356)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHhccCCC
Confidence            348899999999999999988754   5677777763211                     1223333332   224678


Q ss_pred             EEEEecccccc
Q 037859          280 ILVIEDIDCSL  290 (504)
Q Consensus       280 Il~iDeiD~~~  290 (504)
                      +|+||.+..+.
T Consensus       144 lVVIDsl~~l~  154 (356)
T 1u94_A          144 VIVVDSVAALT  154 (356)
T ss_dssp             EEEEECGGGCC
T ss_pred             EEEEcCHHHhc
Confidence            99999999864

>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=96.49  E-value=0.0011  Score=63.23  Aligned_cols=29  Identities=28%  Similarity=0.523  Sum_probs=25.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      .-+.|.||||+||||+++.||..+|...+
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La~~lg~~~~   56 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIAQNFGLQHL   56 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHCCCCE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEe
Confidence            45889999999999999999999887544

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=96.45  E-value=0.007  Score=60.18  Aligned_cols=65  Identities=17%  Similarity=0.189  Sum_probs=41.0

Q ss_pred             ccc-ccccCCCCCcHHHHHHHHHHhc-----CCcEEEEecccc---------------------CChHHH-HHHHH----
Q 037859          226 KKG-YLLYGPPGTGKSTMIAAMANFL-----NYDVYDLELTTV---------------------QDNSEL-RSLLI----  273 (504)
Q Consensus       226 ~rg-~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~---------------------~~~~~l-~~l~~----  273 (504)
                      ++| ++++||||+|||+|+-.++...     +..+.+++...-                     .+.+++ ..+..    
T Consensus        27 ~~GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~ra~~lGvd~d~llv~~~~~~E~~~l~i~~~l~~  106 (333)
T 3io5_A           27 QSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAYLRSMGVDPERVIHTPVQSLEQLRIDMVNQLDA  106 (333)
T ss_dssp             CSEEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHHHHHTTCCGGGEEEEECSBHHHHHHHHHHHHHT
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHHHHHhCCCHHHeEEEcCCCHHHHHHHHHHHHHH
Confidence            445 5789999999999977665433     455666665431                     111222 22221    


Q ss_pred             -hccCCeEEEEecccccc
Q 037859          274 -DTSSKSILVIEDIDCSL  290 (504)
Q Consensus       274 -~~~~~~Il~iDeiD~~~  290 (504)
                       ....+.+|+||-|..++
T Consensus       107 i~~~~~~lvVIDSI~aL~  124 (333)
T 3io5_A          107 IERGEKVVVFIDSLGNLA  124 (333)
T ss_dssp             CCTTCCEEEEEECSTTCB
T ss_pred             hhccCceEEEEecccccc
Confidence             22468999999999875

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=96.44  E-value=0.0041  Score=64.80  Aligned_cols=99  Identities=19%  Similarity=0.277  Sum_probs=65.3

Q ss_pred             ChHHHHHHHHh-ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc
Q 037859          264 DNSELRSLLID-TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA  342 (504)
Q Consensus       264 ~~~~l~~l~~~-~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~  342 (504)
                      +...+.+.-.. +....|+++||||.+....+                       ..+++.....+...||..|||-...
T Consensus       236 ~~~~~~~~ai~~ae~~~il~~DEidki~~~~~-----------------------~~~~D~s~egvq~aLL~~le~~~~~  292 (444)
T 1g41_A          236 NPEELKQKAIDAVEQNGIVFIDEIDKICKKGE-----------------------YSGADVSREGVQRDLLPLVEGSTVS  292 (444)
T ss_dssp             CHHHHHHHHHHHHHHHCEEEEETGGGGSCCSS-----------------------CSSSHHHHHHHHHHHHHHHHCCEEE
T ss_pred             CHHHHHHHHHHHhccCCeeeHHHHHHHhhccC-----------------------CCCCCchHHHHHHHHHHHhcccccc
Confidence            44444443333 34678999999999742100                       0111222233567899999984321


Q ss_pred             ------CCCceEEEEec-----CCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHH
Q 037859          343 ------SGEERIIVFTT-----NYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAK  388 (504)
Q Consensus       343 ------~~~~~ivI~tT-----N~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~  388 (504)
                            ....+++|+|.     |..+ +-|.|+.  ||+.+|.++..+.+++..|+.
T Consensus       293 ~~~~~~d~~~ilfI~~gaf~~~~~~d-lipel~~--R~~i~i~l~~lt~~e~~~Il~  346 (444)
T 1g41_A          293 TKHGMVKTDHILFIASGAFQVARPSD-LIPELQG--RLPIRVELTALSAADFERILT  346 (444)
T ss_dssp             ETTEEEECTTCEEEEEECCSSCCGGG-SCHHHHT--TCCEEEECCCCCHHHHHHHHH
T ss_pred             cccceecCCcEEEEeccccccCChhh-cchHHhc--ccceeeeCCCCCHHHHHHHHH
Confidence                  23557888887     5545 4588998  999999999999999999983

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.42  E-value=0.00051  Score=63.59  Aligned_cols=27  Identities=26%  Similarity=0.336  Sum_probs=23.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      .-+.|.|+|||||||+++.+|..++..
T Consensus        11 ~~I~l~G~~GsGKST~~~~L~~~l~~~   37 (212)
T 2wwf_A           11 KFIVFEGLDRSGKSTQSKLLVEYLKNN   37 (212)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            347889999999999999999987544

>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=96.41  E-value=0.0011  Score=60.89  Aligned_cols=31  Identities=35%  Similarity=0.494  Sum_probs=26.8

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      .-+.|.|++|||||++++.+|.. |+++++.+
T Consensus         9 ~~I~i~G~~GsGKST~~~~La~~-g~~~id~d   39 (203)
T 1uf9_A            9 IIIGITGNIGSGKSTVAALLRSW-GYPVLDLD   39 (203)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHT-TCCEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHC-CCEEEccc
Confidence            34789999999999999999998 88877654

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=96.38  E-value=0.0015  Score=60.97  Aligned_cols=31  Identities=32%  Similarity=0.354  Sum_probs=27.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      -+.|.|+||||||++++.+|..+|+++++.+
T Consensus         5 ~i~i~G~~gsGkst~~~~l~~~~g~~~~~~d   35 (219)
T 2h92_A            5 NIALDGPAAAGKSTIAKRVASELSMIYVDTG   35 (219)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHTTCEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceecCC
Confidence            4779999999999999999999998877653

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.33  E-value=0.0012  Score=66.24  Aligned_cols=34  Identities=26%  Similarity=0.397  Sum_probs=29.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEeccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT  261 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  261 (504)
                      -++|.||+|+|||+|+..||..++..++..|.-.
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~Ds~q   75 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAHFPLEVINSDKMQ   75 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTTSCEEEEECCSST
T ss_pred             eEEEECCCCCCHHHHHHHHHHHCCCcEEcccccc
Confidence            4789999999999999999999998888776553

>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=96.33  E-value=0.011  Score=51.36  Aligned_cols=22  Identities=23%  Similarity=0.382  Sum_probs=19.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|+||+|||+|+.++.+.
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999999864

>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=96.32  E-value=0.0019  Score=58.75  Aligned_cols=25  Identities=40%  Similarity=0.628  Sum_probs=21.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -+.|.||||+||||+++.|+..++.
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~~~g   28 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQLDN   28 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCC
Confidence            3678999999999999999986654

>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=96.32  E-value=0.0015  Score=61.00  Aligned_cols=30  Identities=40%  Similarity=0.492  Sum_probs=25.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      -+.|.|++|+||||+++.+|. +|+++++.+
T Consensus         6 ~I~i~G~~GSGKST~~~~L~~-lg~~~id~D   35 (218)
T 1vht_A            6 IVALTGGIGSGKSTVANAFAD-LGINVIDAD   35 (218)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH-TTCEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH-cCCEEEEcc
Confidence            467899999999999999998 888777653

>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=96.31  E-value=0.0042  Score=58.46  Aligned_cols=33  Identities=18%  Similarity=0.222  Sum_probs=26.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHh--c-------CCcEEEEeccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANF--L-------NYDVYDLELTT  261 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~--l-------~~~i~~l~~~~  261 (504)
                      ++|+||||+|||+|+..+|..  +       +...++++...
T Consensus        27 ~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~   68 (243)
T 1n0w_A           27 TEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEG   68 (243)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCC
Confidence            789999999999999999984  3       44566665543

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.29  E-value=0.002  Score=61.93  Aligned_cols=29  Identities=38%  Similarity=0.613  Sum_probs=25.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      -+.|.||+|+||||+++.||..+|+..++
T Consensus        29 ~I~I~G~~GsGKSTl~k~La~~Lg~~~~d   57 (252)
T 4e22_A           29 VITVDGPSGAGKGTLCKALAESLNWRLLD   57 (252)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCCcCC
Confidence            37789999999999999999999987664

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.27  E-value=0.001  Score=67.25  Aligned_cols=29  Identities=31%  Similarity=0.548  Sum_probs=25.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      .++|.||||+|||+++++||+.++++++.
T Consensus        26 ~i~l~G~~G~GKTTl~~~la~~l~~~f~~   54 (359)
T 2ga8_A           26 CVILVGSPGSGKSTIAEELCQIINEKYHT   54 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHhCCCeee
Confidence            37899999999999999999999887743

>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=96.25  E-value=0.0015  Score=60.62  Aligned_cols=30  Identities=23%  Similarity=0.303  Sum_probs=26.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      .++++|.||+|+|||+||.++|...+ .++.
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g~-~iIs   63 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRGH-RLIA   63 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTTC-EEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhCC-eEEe
Confidence            57899999999999999999999876 5544

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.24  E-value=0.0026  Score=57.79  Aligned_cols=31  Identities=39%  Similarity=0.630  Sum_probs=24.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC---CcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN---YDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~  258 (504)
                      -++|.|+||+||||+++.+|..++   .++..++
T Consensus        15 ~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~   48 (186)
T 2yvu_A           15 VVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLD   48 (186)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEee
Confidence            478899999999999999999874   4444443

>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=0.0018  Score=59.89  Aligned_cols=26  Identities=27%  Similarity=0.478  Sum_probs=23.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcC
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      ++-++|.||||+||||+++.|+..++
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            34578999999999999999999884

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=96.21  E-value=0.009  Score=62.52  Aligned_cols=71  Identities=14%  Similarity=0.182  Sum_probs=54.7

Q ss_pred             CeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCC--
Q 037859          278 KSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNY--  355 (504)
Q Consensus       278 ~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~--  355 (504)
                      |.|++|||+|.+                                   +....+.||..|+.-    ... ++|++||.  
T Consensus       296 ~~VliIDEa~~l-----------------------------------~~~a~~aLlk~lEe~----~~~-~~il~tn~~~  335 (456)
T 2c9o_A          296 PGVLFVDEVHML-----------------------------------DIECFTYLHRALESS----IAP-IVIFASNRGN  335 (456)
T ss_dssp             ECEEEEESGGGC-----------------------------------BHHHHHHHHHHTTST----TCC-EEEEEECCSE
T ss_pred             ceEEEEechhhc-----------------------------------CHHHHHHHHHHhhcc----CCC-EEEEecCCcc
Confidence            479999999986                                   234678888888753    233 55655543  


Q ss_pred             -----------CCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          356 -----------VDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       356 -----------~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                                 ++.|+|.++.  ||.. +.|++++.++...+++...
T Consensus       336 ~~i~~~~~~~~~~~l~~~i~s--R~~~-~~~~~~~~~e~~~iL~~~~  379 (456)
T 2c9o_A          336 CVIRGTEDITSPHGIPLDLLD--RVMI-IRTMLYTPQEMKQIIKIRA  379 (456)
T ss_dssp             EECBTTSSCEEETTCCHHHHT--TEEE-EECCCCCHHHHHHHHHHHH
T ss_pred             ccccccccccccccCChhHHh--hcce-eeCCCCCHHHHHHHHHHHH
Confidence                       7789999999  9965 7999999999999998765

>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=96.18  E-value=0.00082  Score=62.24  Aligned_cols=25  Identities=28%  Similarity=0.211  Sum_probs=22.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      .-++|.|+||+||||+++.+|..++
T Consensus        10 ~~I~l~G~~GsGKsT~~~~L~~~l~   34 (215)
T 1nn5_A           10 ALIVLEGVDRAGKSTQSRKLVEALC   34 (215)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3478899999999999999999764

>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=96.18  E-value=0.002  Score=61.79  Aligned_cols=26  Identities=23%  Similarity=0.305  Sum_probs=23.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      -+.|.||||+|||++++.||..++.+
T Consensus        24 iI~I~G~~GSGKST~a~~L~~~lg~~   49 (252)
T 1uj2_A           24 LIGVSGGTASGKSSVCAKIVQLLGQN   49 (252)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhh
Confidence            47789999999999999999999876

>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=96.18  E-value=0.0013  Score=64.54  Aligned_cols=29  Identities=31%  Similarity=0.292  Sum_probs=23.8

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc-CCcEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL-NYDVY  255 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l-~~~i~  255 (504)
                      +-++|.||||+||||+++.++..+ ++.++
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~~~~~~i   32 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYNI   32 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhCCCcEEe
Confidence            457899999999999999999864 55444

>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=96.15  E-value=0.0023  Score=63.52  Aligned_cols=34  Identities=21%  Similarity=0.494  Sum_probs=28.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      ++-+++.||+|+|||+|+..+|..++..++..|.
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            3457889999999999999999999877776654

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.14  E-value=0.0056  Score=57.04  Aligned_cols=25  Identities=20%  Similarity=0.433  Sum_probs=21.7

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++|  +.|.||+|+|||+|++.+|..+
T Consensus        23 ~~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           23 ETQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            445  7899999999999999999854

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.13  E-value=0.0026  Score=60.34  Aligned_cols=30  Identities=27%  Similarity=0.430  Sum_probs=26.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      -+.|.|++|+|||++++.+|..+|+++++.
T Consensus        18 ~i~i~G~~gsGKst~~~~l~~~lg~~~~d~   47 (236)
T 1q3t_A           18 QIAIDGPASSGKSTVAKIIAKDFGFTYLDT   47 (236)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCceecC
Confidence            367899999999999999999999887764

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.12  E-value=0.0016  Score=60.27  Aligned_cols=29  Identities=24%  Similarity=0.351  Sum_probs=24.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc-CCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL-NYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l-~~~i~~l  257 (504)
                      +.+.||||+||||+++.+++.+ +..++..
T Consensus        24 i~i~G~~GsGKSTl~~~L~~~~~~~~~i~~   53 (207)
T 2qt1_A           24 IGISGVTNSGKTTLAKNLQKHLPNCSVISQ   53 (207)
T ss_dssp             EEEEESTTSSHHHHHHHHHTTSTTEEEEEG
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCcEEEeC
Confidence            6789999999999999999987 5554443

>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=96.10  E-value=0.0061  Score=53.40  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+++.|++|+|||+|+.++.+.-
T Consensus         8 ~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            47899999999999999998753

>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=96.08  E-value=0.03  Score=59.40  Aligned_cols=41  Identities=7%  Similarity=0.056  Sum_probs=34.0

Q ss_pred             ceEEEEecCCCC--CCChhhhcCCCceeEEEecCCCHHHHHHHHH
Q 037859          346 ERIIVFTTNYVD--KLDPALIRRGRMDKHIEMSYCCFEAFKVLAK  388 (504)
Q Consensus       346 ~~ivI~tTN~~e--~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~  388 (504)
                      ++.+|++|.++.  .++..+..  -+...|.|...+..+.+.++.
T Consensus       332 GI~LIlaTQrp~~dvl~~~i~~--n~~~RI~lrv~s~~dsr~ilg  374 (512)
T 2ius_A          332 GIHLVLATQRPSVDVITGLIKA--NIPTRIAFTVSSKIDSRTILD  374 (512)
T ss_dssp             TEEEEEEESCCCTTTSCHHHHH--HCCEEEEECCSSHHHHHHHHS
T ss_pred             CcEEEEEecCCccccccHHHHh--hcCCeEEEEcCCHHHHHHhcC
Confidence            478889998886  68888877  788889999999988888764

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.01  E-value=0.0026  Score=63.93  Aligned_cols=33  Identities=18%  Similarity=0.283  Sum_probs=27.7

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      +-+++.||+|+|||+++..||..++..++..|.
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            357899999999999999999999876665543

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=95.98  E-value=0.0028  Score=58.88  Aligned_cols=29  Identities=17%  Similarity=0.205  Sum_probs=26.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      -+.+.||+|||||++++.+|..+|+++++
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            46789999999999999999999999885

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.97  E-value=0.0028  Score=57.46  Aligned_cols=25  Identities=20%  Similarity=0.351  Sum_probs=21.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +-+.|.||+|+|||||++.|++.+.
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCC
Confidence            3478999999999999999998764

>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=95.93  E-value=0.0024  Score=62.56  Aligned_cols=30  Identities=27%  Similarity=0.246  Sum_probs=25.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .-+.|.|+||+||||+++.++ .+|+++++.
T Consensus        76 ~iI~I~G~~GSGKSTva~~La-~lg~~~id~  105 (281)
T 2f6r_A           76 YVLGLTGISGSGKSSVAQRLK-NLGAYIIDS  105 (281)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH-HHTCEEEEH
T ss_pred             EEEEEECCCCCCHHHHHHHHH-HCCCcEEeh
Confidence            347899999999999999999 678876654

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.93  E-value=0.0032  Score=58.54  Aligned_cols=31  Identities=29%  Similarity=0.428  Sum_probs=25.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC----CcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN----YDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~----~~i~~l~  258 (504)
                      -++|.|+||+||||+++.++..++    .+.+.++
T Consensus        27 ~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~   61 (211)
T 1m7g_A           27 TIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLD   61 (211)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhccccCCcEEEEC
Confidence            377899999999999999999774    4566554

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.92  E-value=0.0027  Score=58.35  Aligned_cols=23  Identities=30%  Similarity=0.366  Sum_probs=21.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+.|.||+|+||||+++.|++.+
T Consensus         8 ~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            8 LIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            36789999999999999999987

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=95.91  E-value=0.0019  Score=66.90  Aligned_cols=31  Identities=29%  Similarity=0.312  Sum_probs=26.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      +.-++|.||||+||||+++.++..+++.++.
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~~~~~~i~  288 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVSAGYVHVN  288 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGGGTCEECC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhcCcEEEc
Confidence            4457889999999999999999998765543

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=95.90  E-value=0.016  Score=50.16  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=19.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++++.
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            4789999999999999999864

>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=95.85  E-value=0.021  Score=49.60  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus         6 ~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999999864

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.84  E-value=0.0035  Score=62.25  Aligned_cols=32  Identities=25%  Similarity=0.282  Sum_probs=26.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      -+++.||+|+|||+|+..+|..++..++..|.
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~~~~iis~Ds   36 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRLNGEVISGDS   36 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTTEEEEECCG
T ss_pred             EEEEECCCcCCHHHHHHHHHHhCccceeecCc
Confidence            46789999999999999999999876665543

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.84  E-value=0.0034  Score=57.60  Aligned_cols=24  Identities=25%  Similarity=0.635  Sum_probs=21.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+.|.||+|+||||+++.|++.+.
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~~~   32 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKALA   32 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHHhhCC
Confidence            367899999999999999999864

>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=95.83  E-value=0.0086  Score=52.34  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=19.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999864

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=95.83  E-value=0.0052  Score=56.43  Aligned_cols=26  Identities=31%  Similarity=0.497  Sum_probs=22.7

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      |.++|.||+|+|||||++.|.....-
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~~   27 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYPD   27 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCC
Confidence            66899999999999999999887643

>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=95.82  E-value=0.011  Score=70.97  Aligned_cols=65  Identities=12%  Similarity=0.216  Sum_probs=46.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHh---cCCcEEEEeccccCC---------------------hHHHHHHHHh---ccCC
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANF---LNYDVYDLELTTVQD---------------------NSELRSLLID---TSSK  278 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~~~~---------------------~~~l~~l~~~---~~~~  278 (504)
                      ++.++|+||||||||+||.++|..   .+..+++++......                     ...+.+++..   ...+
T Consensus        34 G~i~lI~G~pGsGKT~LAlqla~~~~~~G~~vlYI~te~~~~~l~~~~lg~dl~~i~i~~p~t~e~l~~ll~~L~~~~~~  113 (1706)
T 3cmw_A           34 GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAV  113 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhCCCceEEEEecCccHHHHHHhhccCccceeeeccCcHHHHHHHHHHHHhccCC
Confidence            345899999999999999998765   367788887765321                     2333343333   2568


Q ss_pred             eEEEEecccccc
Q 037859          279 SILVIEDIDCSL  290 (504)
Q Consensus       279 ~Il~iDeiD~~~  290 (504)
                      .+|+||++..++
T Consensus       114 ~LVVIDSLt~L~  125 (1706)
T 3cmw_A          114 DVIVVDSVAALT  125 (1706)
T ss_dssp             SEEEESCSTTCC
T ss_pred             CEEEEcchhhhc
Confidence            999999999875

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.81  E-value=0.0053  Score=57.11  Aligned_cols=31  Identities=23%  Similarity=0.155  Sum_probs=24.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      -++|+||||+|||+|++.+|..+   +..++.++
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~   58 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVT   58 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            37899999999999999999654   44555544

>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=95.81  E-value=0.0033  Score=58.44  Aligned_cols=24  Identities=33%  Similarity=0.397  Sum_probs=21.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+.|.||+|+||||+++.|+..+.
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             EEEEECcCCCCHHHHHHHHHhhCC
Confidence            377899999999999999999875

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=95.79  E-value=0.0091  Score=55.10  Aligned_cols=32  Identities=22%  Similarity=0.426  Sum_probs=25.6

Q ss_pred             ccccccCCCCCcHH-HHHHHHHHhc--CCcEEEEe
Q 037859          227 KGYLLYGPPGTGKS-TMIAAMANFL--NYDVYDLE  258 (504)
Q Consensus       227 rg~LL~GPpGtGKT-sla~aiA~~l--~~~i~~l~  258 (504)
                      +-+++|||.|+||| .|.+++.++.  +..++.+.
T Consensus        21 ~l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~k   55 (195)
T 1w4r_A           21 QIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIK   55 (195)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEc
Confidence            34788999999999 8999987755  66777665

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.78  E-value=0.0078  Score=55.50  Aligned_cols=32  Identities=19%  Similarity=0.292  Sum_probs=25.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      +.|.||+|+||||+++.++..+   +.+++.++..
T Consensus        25 i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d   59 (201)
T 1rz3_A           25 LGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMD   59 (201)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhcCCeEEEeccC
Confidence            6789999999999999999876   5666665443

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.76  E-value=0.013  Score=57.79  Aligned_cols=34  Identities=26%  Similarity=0.422  Sum_probs=26.8

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc----CCcEEEEecc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL----NYDVYDLELT  260 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~  260 (504)
                      +-++|.||+|+||||++..+|..+    |..+..+++.
T Consensus       106 ~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D  143 (296)
T 2px0_A          106 KYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTD  143 (296)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecC
Confidence            457899999999999999999765    5566666543

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=95.74  E-value=0.026  Score=50.08  Aligned_cols=23  Identities=22%  Similarity=0.339  Sum_probs=20.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            35899999999999999999863

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens}

Probab=95.72  E-value=0.0013  Score=51.39  Aligned_cols=46  Identities=11%  Similarity=-0.188  Sum_probs=32.9

Q ss_pred             cCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhhC
Q 037859          376 SYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       376 ~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      |.|+.++|..|++.|+.........++..++..+ |||+|||..++.
T Consensus         1 plPd~~~R~~Il~~~l~~~~~~~~~dl~~la~~t~G~SGADi~~l~~   47 (78)
T 3kw6_A            1 PPPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCT   47 (78)
T ss_dssp             CCCCHHHHHHHHHHHHTTSEECTTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHHhcCCCCCCccCHHHHHHHcCCCCHHHHHHHHH
Confidence            6899999999999998754332122344455544 999999987654

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=95.71  E-value=0.011  Score=53.37  Aligned_cols=23  Identities=22%  Similarity=0.436  Sum_probs=20.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      --++|.|++|+|||+|+.++.+.
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            35899999999999999999873

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=95.71  E-value=0.017  Score=51.49  Aligned_cols=22  Identities=23%  Similarity=0.419  Sum_probs=19.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999999864

>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=95.69  E-value=0.0057  Score=66.73  Aligned_cols=48  Identities=29%  Similarity=0.380  Sum_probs=35.0

Q ss_pred             ccChhHHHHHHHhhcc-cccccCCCCCcHHHHHHHHHHhc----CCcEEEEec
Q 037859          212 AMETKKKEEIKKDLKK-GYLLYGPPGTGKSTMIAAMANFL----NYDVYDLEL  259 (504)
Q Consensus       212 ~~~~~~k~~i~~~l~r-g~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~  259 (504)
                      .+++.+++.+...+.+ -+++.||||||||+++..++..+    +..+..+..
T Consensus       180 ~ln~~Q~~av~~~l~~~~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~a~  232 (624)
T 2gk6_A          180 DLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAP  232 (624)
T ss_dssp             CCCHHHHHHHHHHHTCSEEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEEES
T ss_pred             CCCHHHHHHHHHHhcCCCeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEeC
Confidence            4678888888776644 46889999999999988877654    344554433

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=95.67  E-value=0.03  Score=50.79  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        16 ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           16 KVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999999864

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=95.67  E-value=0.019  Score=51.32  Aligned_cols=23  Identities=22%  Similarity=0.433  Sum_probs=20.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      --++|.|++|+|||+|+.++.+.
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35899999999999999999863

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=95.67  E-value=0.014  Score=51.80  Aligned_cols=22  Identities=27%  Similarity=0.480  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        14 ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           14 KLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4899999999999999999864

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=95.66  E-value=0.011  Score=51.70  Aligned_cols=20  Identities=40%  Similarity=0.728  Sum_probs=18.2

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|+||+|||+|+.++.+
T Consensus         5 i~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            5 VLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHcC
Confidence            68999999999999999864

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=95.65  E-value=0.018  Score=50.15  Aligned_cols=21  Identities=24%  Similarity=0.325  Sum_probs=18.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|++|+|||+|+.++.+.
T Consensus         3 i~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999999753

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=95.63  E-value=0.016  Score=51.21  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=20.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        16 ~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           16 FKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999864

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=95.62  E-value=0.014  Score=52.65  Aligned_cols=23  Identities=35%  Similarity=0.476  Sum_probs=20.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      --+++.|++|+|||+|+.++.+.
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            35899999999999999999864

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.61  E-value=0.0048  Score=57.87  Aligned_cols=23  Identities=35%  Similarity=0.665  Sum_probs=21.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+.|.||+|+|||||++.|++.+
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            37799999999999999999977

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=95.58  E-value=0.013  Score=51.09  Aligned_cols=21  Identities=24%  Similarity=0.506  Sum_probs=19.3

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -+++.|++|+|||+|+.++.+
T Consensus         8 ~i~v~G~~~~GKssli~~l~~   28 (170)
T 1r2q_A            8 KLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            478999999999999999986

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.58  E-value=0.0067  Score=58.72  Aligned_cols=22  Identities=50%  Similarity=0.918  Sum_probs=20.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++|.||+|+||||+++++++.+
T Consensus        28 v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           28 ILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             EEEECSTTCSHHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHhC
Confidence            7899999999999999999876

>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=95.58  E-value=0.0087  Score=60.68  Aligned_cols=45  Identities=38%  Similarity=0.638  Sum_probs=32.9

Q ss_pred             CCccccccccChhHHHHHHHhhccc-ccccCCCCCcHHHHHHHHHHhc
Q 037859          204 HPATFDTLAMETKKKEEIKKDLKKG-YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l~rg-~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .+.+++++.+.+..+. +.. .++| +++.||+|+||||+.+++++.+
T Consensus       102 ~~~~l~~lg~~~~l~~-l~~-~~~g~i~I~GptGSGKTTlL~~l~g~~  147 (356)
T 3jvv_A          102 KVLTMEELGMGEVFKR-VSD-VPRGLVLVTGPTGSGKSTTLAAMLDYL  147 (356)
T ss_dssp             SCCCTTTTTCCHHHHH-HHH-CSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCCHHHcCChHHHHH-HHh-CCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            4557888888663332 211 1555 7789999999999999999876

>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=95.57  E-value=0.0099  Score=54.89  Aligned_cols=24  Identities=17%  Similarity=0.466  Sum_probs=21.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .-++|.|+||+|||+|+.++++..
T Consensus        13 ~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           13 PSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999998754

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=95.52  E-value=0.02  Score=51.46  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=20.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++++.
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            5899999999999999999864

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.51  E-value=0.0039  Score=57.66  Aligned_cols=23  Identities=30%  Similarity=0.411  Sum_probs=21.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||+|+||||+++.|++.++
T Consensus         9 i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            9 IGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            66899999999999999999887

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=95.49  E-value=0.038  Score=49.46  Aligned_cols=23  Identities=26%  Similarity=0.401  Sum_probs=20.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -++|.|+||+|||+|++.+.+..
T Consensus        16 ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           16 KIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            48999999999999999988654

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.48  E-value=0.0066  Score=57.62  Aligned_cols=29  Identities=24%  Similarity=0.398  Sum_probs=25.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +=|.||||+|||++++.||..++++.+..
T Consensus        11 ~~~~G~pGsGKsT~a~~L~~~~g~~~is~   39 (230)
T 3gmt_A           11 LILLGAPGAGKGTQANFIKEKFGIPQIST   39 (230)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCCEECH
T ss_pred             eeeECCCCCCHHHHHHHHHHHhCCCeeec
Confidence            44789999999999999999999876643

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.47  E-value=0.015  Score=50.85  Aligned_cols=21  Identities=24%  Similarity=0.566  Sum_probs=19.2

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -+++.|++|+|||+|+.++.+
T Consensus         5 ~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            378999999999999999986

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=95.45  E-value=0.011  Score=61.65  Aligned_cols=34  Identities=26%  Similarity=0.373  Sum_probs=27.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      +-+++.||||+|||+++..+|..+   |..+..+++.
T Consensus       100 ~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D  136 (432)
T 2v3c_C          100 NVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAAD  136 (432)
T ss_dssp             CCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Confidence            468899999999999999999876   4566665543

>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=95.44  E-value=0.02  Score=50.42  Aligned_cols=22  Identities=32%  Similarity=0.600  Sum_probs=19.4

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|+||+|||+|+.++.+.
T Consensus         6 ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCccHHHHHHHHhcC
Confidence            4789999999999999999753

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.42  E-value=0.005  Score=57.12  Aligned_cols=23  Identities=43%  Similarity=0.658  Sum_probs=21.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||+|+|||||++.|++.+.
T Consensus        25 v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           25 VALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             EEEECCTTSCTHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            66899999999999999999875

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=95.42  E-value=0.013  Score=51.02  Aligned_cols=22  Identities=23%  Similarity=0.401  Sum_probs=19.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|+||+|||+|+.++.+.
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999999863

>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=0.0069  Score=55.30  Aligned_cols=33  Identities=21%  Similarity=0.236  Sum_probs=28.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV  262 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  262 (504)
                      +|++|++|+|||++|..+|.. +.+++++.....
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-~~~~~yiaT~~~   34 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-APQVLYIATSQI   34 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-CSSEEEEECCCC
T ss_pred             EEEECCCCCcHHHHHHHHHhc-CCCeEEEecCCC
Confidence            588999999999999999988 888888877654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.40  E-value=0.006  Score=56.25  Aligned_cols=25  Identities=32%  Similarity=0.551  Sum_probs=22.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +-+.|.||+|+|||||++.|++.+.
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCc
Confidence            4588999999999999999998753

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=95.40  E-value=0.026  Score=50.68  Aligned_cols=23  Identities=26%  Similarity=0.472  Sum_probs=20.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      --+++.|+||+|||+|+.++.+.
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999864

>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=95.39  E-value=0.011  Score=61.09  Aligned_cols=47  Identities=30%  Similarity=0.504  Sum_probs=35.3

Q ss_pred             CccccccccChhHHHHHHHhh--ccc-ccccCCCCCcHHHHHHHHHHhcC
Q 037859          205 PATFDTLAMETKKKEEIKKDL--KKG-YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l--~rg-~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +..++++.+.+..+..+.+.+  +.| +++.||+|+||||+.+++++.+.
T Consensus       143 ~~~l~~Lg~~~~~~~~L~~l~~~~ggii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          143 RLDLHSLGMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             CCCGGGSCCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             CCCHHHcCCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHhhcC
Confidence            446788888876554443333  444 68999999999999999999885

>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=95.38  E-value=0.0074  Score=65.57  Aligned_cols=31  Identities=32%  Similarity=0.567  Sum_probs=28.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      -++|.|+||+||||+++++|..+   |++++.++
T Consensus        54 lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lD   87 (630)
T 1x6v_B           54 TVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   87 (630)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEES
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEec
Confidence            47899999999999999999999   99998885

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.37  E-value=0.0089  Score=56.25  Aligned_cols=32  Identities=28%  Similarity=0.231  Sum_probs=24.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      ++|+||||+|||+++..+|...   +.++++++..
T Consensus        26 ~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~e   60 (247)
T 2dr3_A           26 VLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVALE   60 (247)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEcc
Confidence            7899999999999988887543   5566666543

>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=95.37  E-value=0.0065  Score=56.30  Aligned_cols=26  Identities=27%  Similarity=0.431  Sum_probs=22.7

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcC
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      ++-+.|.||+|+|||+|+++|++...
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            45578999999999999999998764

>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=95.35  E-value=0.0027  Score=58.68  Aligned_cols=24  Identities=21%  Similarity=0.407  Sum_probs=21.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +.|.||+|+||||+++.|+..++.
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            578999999999999999998853

>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=95.32  E-value=0.016  Score=58.47  Aligned_cols=25  Identities=20%  Similarity=0.433  Sum_probs=22.4

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++|  +.|+||||+|||+|+..+|...
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            555  7899999999999999999876

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.31  E-value=0.0064  Score=56.80  Aligned_cols=30  Identities=23%  Similarity=0.339  Sum_probs=25.1

Q ss_pred             HHHHhhccc--ccccCCCCCcHHHHHHHHHHh
Q 037859          220 EIKKDLKKG--YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       220 ~i~~~l~rg--~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .++++++.|  +.|.||.|+|||||+++|++.
T Consensus        14 ~~l~~i~~Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           14 HYVDAIDTNTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             HHHHHHHHCSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             HHHHhccCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            456667556  778999999999999999985

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=95.28  E-value=0.0087  Score=59.31  Aligned_cols=25  Identities=40%  Similarity=0.725  Sum_probs=22.6

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++|  +.|+||+|+|||||++.|++.+
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            555  7899999999999999999987

>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=95.27  E-value=0.0095  Score=66.80  Aligned_cols=39  Identities=31%  Similarity=0.526  Sum_probs=31.4

Q ss_pred             ccChhHHHHHHHhhccc-ccccCCCCCcHHHHHHHHHHhc
Q 037859          212 AMETKKKEEIKKDLKKG-YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       212 ~~~~~~k~~i~~~l~rg-~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .+++.+++.+...+.++ +++.||||||||+++..++..+
T Consensus       356 ~Ln~~Q~~Av~~~l~~~~~lI~GppGTGKT~ti~~~i~~l  395 (800)
T 2wjy_A          356 DLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHL  395 (800)
T ss_dssp             CCCHHHHHHHHHHHTSSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHhccCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            46888888888777544 6889999999999988877654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.25  E-value=0.026  Score=48.87  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=19.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++++.
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            4789999999999999999864

>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=95.25  E-value=0.0077  Score=57.04  Aligned_cols=29  Identities=38%  Similarity=0.556  Sum_probs=24.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC--CcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN--YDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~--~~i~~l  257 (504)
                      +.|.||||+||||+++.++..++  .+++..
T Consensus        29 i~i~G~~GsGKsT~~~~l~~~l~~~~~~~~~   59 (229)
T 4eaq_A           29 ITFEGPEGSGKTTVINEVYHRLVKDYDVIMT   59 (229)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTTTSCEEEE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHhcCCCceee
Confidence            67889999999999999999986  455443

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=95.24  E-value=0.0068  Score=57.30  Aligned_cols=29  Identities=21%  Similarity=0.197  Sum_probs=26.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      -+.+.|++|||||++++.+|..+|+++|+
T Consensus        16 iI~i~g~~gsGk~~i~~~la~~lg~~~~d   44 (223)
T 3hdt_A           16 IITIEREYGSGGRIVGKKLAEELGIHFYD   44 (223)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTCEEEC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHcCCcEEc
Confidence            46789999999999999999999999875

>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=95.19  E-value=0.0077  Score=55.77  Aligned_cols=23  Identities=30%  Similarity=0.563  Sum_probs=21.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||+|+|||||+++|++.+.
T Consensus        23 ~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           23 VVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHST
T ss_pred             EEEECCCCCCHHHHHHHHHhhCC
Confidence            77899999999999999999874

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.19  E-value=0.017  Score=52.11  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -++|.|++|+|||+|+.++.+.-
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            48999999999999999998753

>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=95.13  E-value=0.0084  Score=53.44  Aligned_cols=25  Identities=32%  Similarity=0.461  Sum_probs=22.4

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.|  +.|.||.|+|||||+++|++.+
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            445  7799999999999999999987

>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=95.11  E-value=0.018  Score=57.19  Aligned_cols=21  Identities=19%  Similarity=0.213  Sum_probs=19.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++++||||+|||+++..+|..
T Consensus       101 ~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A          101 TEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999865

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=95.10  E-value=0.028  Score=51.08  Aligned_cols=22  Identities=23%  Similarity=0.380  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A           10 KILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5889999999999999999764

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.09  E-value=0.0082  Score=53.89  Aligned_cols=18  Identities=39%  Similarity=0.606  Sum_probs=16.3

Q ss_pred             ccccCCCCCcHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAM  246 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~ai  246 (504)
                      +.|.||+|+|||||++++
T Consensus        12 ~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A           12 VVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             EEEECCTTSCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            779999999999999953

>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=95.05  E-value=0.017  Score=51.08  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=19.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|+||+|||+|+.++.+.
T Consensus         9 ~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            9 KVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999999853

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=95.04  E-value=0.022  Score=50.29  Aligned_cols=21  Identities=19%  Similarity=0.460  Sum_probs=19.0

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -+++.|+||+|||+|+.++.+
T Consensus         8 ki~v~G~~~~GKssl~~~l~~   28 (178)
T 2hxs_A            8 KIVVLGDGASGKTSLTTCFAQ   28 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHG
T ss_pred             EEEEECcCCCCHHHHHHHHHh
Confidence            478999999999999999975

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.00  E-value=0.009  Score=54.89  Aligned_cols=23  Identities=43%  Similarity=0.794  Sum_probs=20.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+.|.||+|+||||+++.||+.+
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            36789999999999999999876

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=94.99  E-value=0.042  Score=50.52  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -++|.|++|+|||+|+.++.+.
T Consensus        27 ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           27 KLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            5899999999999999999853

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=94.98  E-value=0.018  Score=51.41  Aligned_cols=22  Identities=32%  Similarity=0.587  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        12 ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           12 KFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5889999999999999999864

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=94.94  E-value=0.028  Score=50.04  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=19.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        20 ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           20 KLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4799999999999999999864

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=94.94  E-value=0.013  Score=65.63  Aligned_cols=49  Identities=22%  Similarity=0.421  Sum_probs=36.1

Q ss_pred             ccChhHHHHHHHhhccc-ccccCCCCCcHHHHHHHHHHhc----CCcEEEEecc
Q 037859          212 AMETKKKEEIKKDLKKG-YLLYGPPGTGKSTMIAAMANFL----NYDVYDLELT  260 (504)
Q Consensus       212 ~~~~~~k~~i~~~l~rg-~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~  260 (504)
                      .+++.+++.+...+.++ +|+.||||||||+++..++..+    +..+..+..+
T Consensus       360 ~Ln~~Q~~Av~~~l~~~~~lI~GppGTGKT~~i~~~i~~l~~~~~~~ILv~a~t  413 (802)
T 2xzl_A          360 QLNSSQSNAVSHVLQRPLSLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPS  413 (802)
T ss_dssp             CCCHHHHHHHHHHTTCSEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEESS
T ss_pred             cCCHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEEcCc
Confidence            47888888888777555 6889999999999887776543    4555555443

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=94.93  E-value=0.021  Score=51.66  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      --+++.|++|+|||+|+.++.+.
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            35899999999999999999864

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=94.93  E-value=0.029  Score=51.03  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        29 ~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           29 YKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            45899999999999999999753

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=94.92  E-value=0.0092  Score=61.26  Aligned_cols=31  Identities=26%  Similarity=0.393  Sum_probs=26.4

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      -+++.||+|+|||+|+..+|..++..++..|
T Consensus         4 ~i~i~GptgsGKttla~~La~~~~~~iis~D   34 (409)
T 3eph_A            4 VIVIAGTTGVGKSQLSIQLAQKFNGEVINSD   34 (409)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHTEEEEECC
T ss_pred             EEEEECcchhhHHHHHHHHHHHCCCeEeecC
Confidence            4678999999999999999999987666543

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=94.92  E-value=0.039  Score=50.40  Aligned_cols=23  Identities=17%  Similarity=0.264  Sum_probs=20.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      --++|.|++|+|||+|+..+.+.
T Consensus        30 ~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           30 FKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhhC
Confidence            35899999999999999999753

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=94.88  E-value=0.014  Score=51.08  Aligned_cols=20  Identities=35%  Similarity=0.630  Sum_probs=18.2

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|+||+|||+|+.++.+
T Consensus         5 i~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            5 VMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            68899999999999999964

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.86  E-value=0.016  Score=54.46  Aligned_cols=32  Identities=31%  Similarity=0.270  Sum_probs=24.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHh----cCCcEEEEecc
Q 037859          229 YLLYGPPGTGKSTMIAAMANF----LNYDVYDLELT  260 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~----l~~~i~~l~~~  260 (504)
                      ++++|+||+|||+++..+|..    .+.+++++++.
T Consensus        33 ~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E   68 (251)
T 2zts_A           33 VLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLE   68 (251)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESS
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeeccc
Confidence            889999999999999876543    36677666543

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=94.84  E-value=0.0089  Score=54.14  Aligned_cols=27  Identities=30%  Similarity=0.404  Sum_probs=23.4

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      .+|+||.||+|+|||++|.++... |..
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            579999999999999999999874 443

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=94.81  E-value=0.011  Score=53.24  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=20.2

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+++.|++|+|||+|+.++.+.-
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           23 HVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             EEEEEECTTSSHHHHHHHTSCGG
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48999999999999999997643

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=94.81  E-value=0.021  Score=51.50  Aligned_cols=23  Identities=26%  Similarity=0.290  Sum_probs=20.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      --+++.|++|+|||+|+.++.+.
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHcC
Confidence            34899999999999999999863

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=94.79  E-value=0.012  Score=55.44  Aligned_cols=24  Identities=33%  Similarity=0.584  Sum_probs=21.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            477899999999999999999875

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=94.76  E-value=0.023  Score=50.92  Aligned_cols=22  Identities=32%  Similarity=0.484  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|+||+|||+|+.++.+.
T Consensus        18 ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           18 RILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4889999999999999999864

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=94.73  E-value=0.0097  Score=57.81  Aligned_cols=23  Identities=30%  Similarity=0.365  Sum_probs=20.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -++|+||||+|||+|+..+|..+
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            38899999999999999998654

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=94.72  E-value=0.026  Score=51.39  Aligned_cols=23  Identities=13%  Similarity=0.247  Sum_probs=20.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-++|.|++|+|||+|+.++.+.
T Consensus        25 ~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           25 RKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            35899999999999999999874

>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=94.72  E-value=0.034  Score=58.19  Aligned_cols=22  Identities=27%  Similarity=0.557  Sum_probs=19.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .+|+||||+|||+|+..++...
T Consensus       154 ~~i~G~sGvGKTtL~~~l~~~~  175 (473)
T 1sky_E          154 IGLFGGAGVGKTVLIQELIHNI  175 (473)
T ss_dssp             EEEECCSSSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCccHHHHHHHhhh
Confidence            8899999999999999987654

>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=94.71  E-value=0.017  Score=62.84  Aligned_cols=37  Identities=30%  Similarity=0.385  Sum_probs=28.4

Q ss_pred             ChhHHHHHHHhh-cccccccCCCCCcHHHHHHHHHHhc
Q 037859          214 ETKKKEEIKKDL-KKGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       214 ~~~~k~~i~~~l-~rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .+.+++.+...+ .+-+++.||||||||+++.++...+
T Consensus       151 ~~~Q~~Ai~~~l~~~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          151 INWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             CCHHHHHHHHHHTBSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhcCCCEEEEeCCCCCHHHHHHHHHHHH
Confidence            466777776666 4457889999999999988876554

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.70  E-value=0.024  Score=53.69  Aligned_cols=32  Identities=25%  Similarity=0.326  Sum_probs=22.8

Q ss_pred             cc--ccccCCCCCcHHHHHHHHHHhc-------CCcEEEEe
Q 037859          227 KG--YLLYGPPGTGKSTMIAAMANFL-------NYDVYDLE  258 (504)
Q Consensus       227 rg--~LL~GPpGtGKTsla~aiA~~l-------~~~i~~l~  258 (504)
                      +|  +.|.||+|+||||+++.++..+       +++++...
T Consensus        24 ~g~~I~~eG~~GsGKsT~~~~l~~~l~~~~~~~g~~v~~~r   64 (227)
T 3v9p_A           24 RGKFITFEGIDGAGKTTHLQWFCDRLQERLGPAGRHVVVTR   64 (227)
T ss_dssp             CCCEEEEECCC---CHHHHHHHHHHHHHHHGGGTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhccccceeeeeec
Confidence            55  5678999999999999999887       66665443

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=94.69  E-value=0.043  Score=49.26  Aligned_cols=22  Identities=14%  Similarity=0.267  Sum_probs=19.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      .-+++.|++|+|||+|+.++.+
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~   42 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCA   42 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            3589999999999999999975

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=94.65  E-value=0.031  Score=51.30  Aligned_cols=23  Identities=17%  Similarity=0.291  Sum_probs=20.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-+++.|++|+|||+|+.++.+.
T Consensus         8 ~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            8 RAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            34889999999999999999864

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.65  E-value=0.031  Score=50.42  Aligned_cols=21  Identities=24%  Similarity=0.613  Sum_probs=19.4

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -+++.|++|+|||+|+.++.+
T Consensus        10 ki~vvG~~~~GKSsli~~l~~   30 (199)
T 2gf0_A           10 RVVVFGAGGVGKSSLVLRFVK   30 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHc
Confidence            478999999999999999986

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=94.65  E-value=0.019  Score=50.60  Aligned_cols=22  Identities=18%  Similarity=0.359  Sum_probs=19.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        16 ~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           16 KLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4889999999999999999853

>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=94.65  E-value=0.017  Score=61.59  Aligned_cols=33  Identities=15%  Similarity=0.302  Sum_probs=26.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      +.-++|.|+||+|||++++.+|.++   +.+...++
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La~~L~~~~~d~~v~s   70 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLTRYLNWIGVPTKVFN   70 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEec
Confidence            3458899999999999999999988   44444443

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=94.64  E-value=0.019  Score=50.78  Aligned_cols=23  Identities=22%  Similarity=0.356  Sum_probs=20.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        10 ~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A           10 HKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999999875

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.64  E-value=0.035  Score=50.27  Aligned_cols=23  Identities=22%  Similarity=0.466  Sum_probs=20.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      --+++.|++|+|||+|+.++.+.
T Consensus        29 ~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           29 VKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999999864

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=94.62  E-value=0.073  Score=59.46  Aligned_cols=33  Identities=27%  Similarity=0.471  Sum_probs=23.7

Q ss_pred             HHHHHHHhhc--ccccccCCCCCcHHHHHHHHHHh
Q 037859          217 KKEEIKKDLK--KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       217 ~k~~i~~~l~--rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|...+.  ..+++.||+|+|||+++..++..
T Consensus        98 q~~~i~~~l~~~~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A           98 QRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             GHHHHHHHHHHCSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            4455555553  34899999999999977766543

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.60  E-value=0.045  Score=48.30  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        12 ~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           12 KVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            5889999999999999999764

>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=94.58  E-value=0.035  Score=65.69  Aligned_cols=23  Identities=43%  Similarity=0.751  Sum_probs=20.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+-++||+|+|||||++++.+..
T Consensus      1107 ~vaIVG~SGsGKSTL~~lL~rl~ 1129 (1321)
T 4f4c_A         1107 TLALVGPSGCGKSTVVALLERFY 1129 (1321)
T ss_dssp             EEEEECSTTSSTTSHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCc
Confidence            38899999999999999998866

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=94.57  E-value=0.016  Score=50.70  Aligned_cols=21  Identities=29%  Similarity=0.518  Sum_probs=19.3

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -+++.|++|+|||+|+.++.+
T Consensus         9 ~i~v~G~~~~GKssl~~~l~~   29 (171)
T 1upt_A            9 RILILGLDGAGKTTILYRLQV   29 (171)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            488999999999999999975

>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=94.57  E-value=0.011  Score=57.81  Aligned_cols=31  Identities=26%  Similarity=0.171  Sum_probs=24.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc----CCcEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL----NYDVYDLEL  259 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~  259 (504)
                      ++|.||||+|||+|++.+|..+    |.++..++.
T Consensus        38 ~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~~   72 (296)
T 1cr0_A           38 IMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAML   72 (296)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEES
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            7899999999999999998865    445655543

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.55  E-value=0.014  Score=55.64  Aligned_cols=28  Identities=21%  Similarity=0.309  Sum_probs=23.7

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      ++|  +-|.||+|+||||+++.|++.+|..
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~~lG~~   52 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIMELLGQN   52 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhchh
Confidence            445  5689999999999999999988754

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=94.54  E-value=0.028  Score=50.51  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=20.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus         9 ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            9 KTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999999875

>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=94.54  E-value=0.033  Score=52.05  Aligned_cols=30  Identities=37%  Similarity=0.371  Sum_probs=24.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      +.|.||+|+||||+++.++..+   +++++...
T Consensus         9 i~~eG~~gsGKsT~~~~l~~~l~~~~~~v~~~~   41 (213)
T 4edh_A            9 VTLEGPEGAGKSTNRDYLAERLRERGIEVQLTR   41 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCccccc
Confidence            5678999999999999999887   45665443

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=94.51  E-value=0.012  Score=60.08  Aligned_cols=43  Identities=40%  Similarity=0.637  Sum_probs=29.3

Q ss_pred             CccccccccChhHHHHHHHhh-ccc-ccccCCCCCcHHHHHHHHHHhc
Q 037859          205 PATFDTLAMETKKKEEIKKDL-KKG-YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l-~rg-~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.+++++.+++..++ +.  + +.+ +++.||+|+||||++++|++.+
T Consensus       116 ~~~l~~lg~~~~l~~-l~--~~~g~~i~ivG~~GsGKTTll~~l~~~~  160 (372)
T 2ewv_A          116 IPEFKKLGLPDKVLE-LC--HRKMGLILVTGPTGSGKSTTIASMIDYI  160 (372)
T ss_dssp             CCCHHHHCCCSSHHH-HT--TSSSEEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCHhHcCCCHHHHH-Hh--hcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            345666665543222 21  2 233 7899999999999999999876

>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=94.48  E-value=0.015  Score=52.28  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=20.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      .+|+||.|+|||++++||+..++
T Consensus        29 ~~i~G~NGsGKStll~ai~~~l~   51 (182)
T 3kta_A           29 TAIVGANGSGKSNIGDAILFVLG   51 (182)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHc
Confidence            57899999999999999998775

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens}

Probab=94.44  E-value=0.014  Score=46.49  Aligned_cols=47  Identities=13%  Similarity=-0.174  Sum_probs=33.1

Q ss_pred             ecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhhC
Q 037859          375 MSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       375 ~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      -++|+.++|.+|++.++.........++..+++.+ |||+|||..++.
T Consensus         8 ~~~Pd~~~R~~IL~~~l~~~~l~~dvdl~~LA~~T~G~SGADL~~l~~   55 (86)
T 2krk_A            8 HSHPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCT   55 (86)
T ss_dssp             CCCCCHHHHHHHHHHHTTTSEECTTCCCHHHHHTCSSCCHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHHHHH
Confidence            46899999999999999754322112234455545 999999987644

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=94.43  E-value=0.028  Score=50.87  Aligned_cols=22  Identities=18%  Similarity=0.536  Sum_probs=19.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      --+++.|++|+|||+|+.++.+
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~   48 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTD   48 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            3489999999999999999964

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.41  E-value=0.027  Score=51.75  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-++|.|++|+|||+|+.++.+.
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            35899999999999999999864

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.40  E-value=0.0098  Score=55.96  Aligned_cols=23  Identities=26%  Similarity=0.371  Sum_probs=14.5

Q ss_pred             cccccCCCCCcHHHHHHHHH-Hhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMA-NFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA-~~l  250 (504)
                      -+.|.||+|+||||+++.|+ +.+
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC---
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCC
Confidence            36789999999999999999 775

>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=94.40  E-value=0.017  Score=62.33  Aligned_cols=30  Identities=30%  Similarity=0.270  Sum_probs=26.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC----CcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN----YDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~----~~i~~l~  258 (504)
                      ++|.|+||+||||++++++..++    .+++.++
T Consensus       399 I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD  432 (573)
T 1m8p_A          399 IFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLL  432 (573)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEE
T ss_pred             EEeecCCCCCHHHHHHHHHHHhcccCCceEEEEC
Confidence            67899999999999999999986    6777776

>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=94.40  E-value=0.027  Score=50.76  Aligned_cols=32  Identities=16%  Similarity=0.227  Sum_probs=25.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      -+.+.|++|+|||+++..++..+   ++.+..+..
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik~   40 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKH   40 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEEe
Confidence            46789999999999999999876   566665554

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=94.40  E-value=0.022  Score=59.10  Aligned_cols=35  Identities=29%  Similarity=0.356  Sum_probs=27.4

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      ++-+++.||+|+||||++..+|..+   +..+..+++.
T Consensus        97 ~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D  134 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAAD  134 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecC
Confidence            3457889999999999999999776   5666655543

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.36  E-value=0.011  Score=58.12  Aligned_cols=35  Identities=17%  Similarity=0.292  Sum_probs=24.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC---CcEEEEeccccC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN---YDVYDLELTTVQ  263 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~~~  263 (504)
                      +.+.||+|+||||+++.++..++   ..+..+++..+.
T Consensus         8 IgItG~sGSGKSTva~~L~~~lg~~~~~~~vI~~D~~~   45 (290)
T 1a7j_A            8 ISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   45 (290)
T ss_dssp             EEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhcCCCeeEeecchhh
Confidence            66899999999999999999776   445556655543

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=94.35  E-value=0.042  Score=51.38  Aligned_cols=20  Identities=20%  Similarity=0.488  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|.+|+|||+|+..+..
T Consensus        16 ivlvGd~~VGKTsLi~r~~~   35 (216)
T 4dkx_A           16 LVFLGEQSVGKTSLITRFMY   35 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECcCCcCHHHHHHHHHh
Confidence            78999999999999999875

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=94.35  E-value=0.023  Score=51.09  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=20.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999864

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=94.31  E-value=0.023  Score=51.92  Aligned_cols=22  Identities=32%  Similarity=0.525  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -++|.|++|+|||+|+.++.+.
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y           10 KLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999999863

>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=94.29  E-value=0.057  Score=61.23  Aligned_cols=22  Identities=32%  Similarity=0.445  Sum_probs=19.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      +-++|.||.|+||||+.+.+|.
T Consensus       674 ~i~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          674 RVMIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             CEEEEESCCCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCchHHHHHHHHH
Confidence            3488999999999999999874

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=94.28  E-value=0.024  Score=56.10  Aligned_cols=34  Identities=24%  Similarity=0.246  Sum_probs=26.8

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      +-+++.||+|+||||++..+|..+   +..+..+++.
T Consensus       105 ~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~D  141 (306)
T 1vma_A          105 FVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAAD  141 (306)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             eEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEccc
Confidence            457899999999999999999876   4556555543

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=94.23  E-value=0.029  Score=50.55  Aligned_cols=23  Identities=26%  Similarity=0.547  Sum_probs=20.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      --+++.|++|+|||+|+.++.+.
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            35899999999999999999864

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.20  E-value=0.03  Score=50.21  Aligned_cols=22  Identities=18%  Similarity=0.376  Sum_probs=19.7

Q ss_pred             ccccccCCCCCcHHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      --+++.|++|+|||+|+.++.+
T Consensus        17 ~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A           17 HKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3489999999999999999984

>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=94.19  E-value=0.1  Score=58.47  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=20.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +-++|.||.|+|||++.+.+|..
T Consensus       608 ~i~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          608 RMLIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHHHH
Confidence            44889999999999999999864

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=94.17  E-value=0.023  Score=60.34  Aligned_cols=39  Identities=18%  Similarity=0.267  Sum_probs=29.0

Q ss_pred             cChhHHHHHHHhh--cccccccCCCCCcHHHHHHHHHHhcC
Q 037859          213 METKKKEEIKKDL--KKGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       213 ~~~~~k~~i~~~l--~rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.+...+.+.-.+  +.++++.||+|+||||+++++++.+.
T Consensus       245 ~~~~~l~~l~~~v~~g~~i~I~GptGSGKTTlL~aL~~~i~  285 (511)
T 2oap_1          245 VPSGVLAYLWLAIEHKFSAIVVGETASGKTTTLNAIMMFIP  285 (511)
T ss_dssp             SCHHHHHHHHHHHHTTCCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            4454444444444  44589999999999999999999884

>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=94.15  E-value=0.01  Score=57.06  Aligned_cols=27  Identities=22%  Similarity=0.427  Sum_probs=22.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc-CCcE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL-NYDV  254 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l-~~~i  254 (504)
                      -+.|.|++|+||||+++.||..+ +..+
T Consensus        26 ~I~ieG~~GsGKST~~~~L~~~l~~~~~   53 (263)
T 1p5z_B           26 KISIEGNIAAGKSTFVNILKQLCEDWEV   53 (263)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCTTEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            36789999999999999999998 4333

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=94.14  E-value=0.021  Score=50.92  Aligned_cols=21  Identities=29%  Similarity=0.556  Sum_probs=9.1

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -+++.|+||+|||+|+.++.+
T Consensus        10 ki~v~G~~~~GKssl~~~l~~   30 (183)
T 2fu5_C           10 KLLLIGDSGVGKTCVLFRFSE   30 (183)
T ss_dssp             EEEEECCCCC-----------
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            588999999999999999875

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=94.12  E-value=0.027  Score=58.64  Aligned_cols=35  Identities=29%  Similarity=0.433  Sum_probs=27.9

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      ++-+++.||||+||||++..+|.++   |..+..+++.
T Consensus       100 p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D  137 (443)
T 3dm5_A          100 PTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSD  137 (443)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCC
Confidence            4568899999999999999999876   5666665544

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=94.09  E-value=0.038  Score=53.30  Aligned_cols=22  Identities=32%  Similarity=0.582  Sum_probs=19.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+.|.|+||+|||||+.++.+.
T Consensus         5 ~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            5 TVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEECSSSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999864

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.07  E-value=0.053  Score=53.75  Aligned_cols=35  Identities=23%  Similarity=0.241  Sum_probs=27.3

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      ++|  +++.|+||+|||+++..+|...   +.++..+++.
T Consensus        66 ~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~slE  105 (315)
T 3bh0_A           66 KRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLE  105 (315)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEESS
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEECC
Confidence            445  8899999999999999998654   4566666554

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=94.05  E-value=0.068  Score=50.26  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=20.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-++|.|++|+|||||+.++.+.
T Consensus        30 ~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           30 LRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHcCC
Confidence            45899999999999999999864

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=94.05  E-value=0.022  Score=53.22  Aligned_cols=30  Identities=30%  Similarity=0.352  Sum_probs=27.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      +-|+|.+|||||++++.++. +|+++++.|.
T Consensus        12 iglTGgigsGKStv~~~l~~-~g~~vidaD~   41 (210)
T 4i1u_A           12 IGLTGGIGSGKTTVADLFAA-RGASLVDTDL   41 (210)
T ss_dssp             EEEECCTTSCHHHHHHHHHH-TTCEEEEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCcEEECcH
Confidence            56899999999999999998 9999998765

>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=94.04  E-value=0.019  Score=56.79  Aligned_cols=24  Identities=33%  Similarity=0.576  Sum_probs=21.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .-+.|.||+|+||||+++.||+.+
T Consensus       103 ~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          103 RVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHH
Confidence            347789999999999999999876

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=94.02  E-value=0.021  Score=52.07  Aligned_cols=22  Identities=27%  Similarity=0.513  Sum_probs=20.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+.|.||+|+|||+|++.+++.
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            4688999999999999999985

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=93.97  E-value=0.019  Score=51.98  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=19.6

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -+++.|+||+|||+|+.++.+
T Consensus        25 ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           25 KLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            488999999999999999987

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=93.97  E-value=0.19  Score=50.50  Aligned_cols=22  Identities=18%  Similarity=0.376  Sum_probs=19.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+.+.|++|+|||||+.++.+.
T Consensus        36 ~I~vvG~~~sGKSSLln~l~g~   57 (360)
T 3t34_A           36 AIAVVGGQSSGKSSVLESIVGK   57 (360)
T ss_dssp             EEEEECBTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4788999999999999999983

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.95  E-value=0.024  Score=53.66  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=21.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+.+.|++|+||||+++.++..++
T Consensus         4 ~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            4 RLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            367899999999999999999984

>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=93.93  E-value=0.023  Score=57.51  Aligned_cols=27  Identities=26%  Similarity=0.434  Sum_probs=23.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      .-+.|.||+|+|||||++.|++.+...
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            347899999999999999999987653

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=93.91  E-value=0.15  Score=45.35  Aligned_cols=23  Identities=26%  Similarity=0.371  Sum_probs=20.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35889999999999999999764

>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=93.91  E-value=0.02  Score=51.97  Aligned_cols=23  Identities=26%  Similarity=0.450  Sum_probs=20.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+.|.||+|+|||||++.+++..
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            47899999999999999999854

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=93.90  E-value=0.021  Score=56.40  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=21.6

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .-+.|.||.|+||||+++.||+.+
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            347899999999999999999976

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=93.90  E-value=0.027  Score=51.05  Aligned_cols=21  Identities=24%  Similarity=0.392  Sum_probs=19.1

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -+++.|+||+|||+|+.++.+
T Consensus        31 ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           31 RILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             EEEEEESTTSSHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999999964

>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=93.89  E-value=0.019  Score=56.78  Aligned_cols=34  Identities=21%  Similarity=0.201  Sum_probs=25.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC-----CcEEEEecccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN-----YDVYDLELTTV  262 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~-----~~i~~l~~~~~  262 (504)
                      +.|.||+|+|||||++.|++.++     -.+..+++...
T Consensus        83 igI~G~~GsGKSTl~~~L~~~l~~~~~~G~i~vi~~d~~  121 (308)
T 1sq5_A           83 ISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhCCCCCeEEEEecCCc
Confidence            66899999999999999999876     12555554443

>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=93.89  E-value=0.03  Score=59.42  Aligned_cols=24  Identities=8%  Similarity=0.030  Sum_probs=22.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +.|.|++||||||++++||..|+.
T Consensus       398 I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          398 IVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             EEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             EEecccCCCCHHHHHHHHHHHHHH
Confidence            678999999999999999999985

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=93.87  E-value=0.023  Score=51.43  Aligned_cols=33  Identities=18%  Similarity=0.120  Sum_probs=25.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      .-+.|.||+|+|||+++..++..+   ++.+-.+..
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~l~~~g~~v~~i~~   42 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKH   42 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhccccCCceeEEee
Confidence            347789999999999999998865   444544443

>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=93.85  E-value=0.022  Score=56.58  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=20.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||+|+|||||++.|++.+.
T Consensus        93 vgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           93 IGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCchHHHHHHHHHhhcc
Confidence            66899999999999999999774

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.84  E-value=0.02  Score=54.57  Aligned_cols=24  Identities=33%  Similarity=0.664  Sum_probs=21.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +.|.||.|+|||||.+.|++.+..
T Consensus        27 ~~liG~nGsGKSTLl~~l~Gl~~p   50 (240)
T 2onk_A           27 CVLLGPTGAGKSVFLELIAGIVKP   50 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCC
Confidence            568999999999999999997643

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=93.83  E-value=0.04  Score=57.56  Aligned_cols=36  Identities=19%  Similarity=0.357  Sum_probs=27.7

Q ss_pred             hhccc--ccccCCCCCcHHHHHHHHHHhc----CCcEEEEec
Q 037859          224 DLKKG--YLLYGPPGTGKSTMIAAMANFL----NYDVYDLEL  259 (504)
Q Consensus       224 ~l~rg--~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~  259 (504)
                      -+++|  +++.||||+|||+|+..+|..+    |.++..+++
T Consensus       199 Gl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~  240 (454)
T 2r6a_A          199 GFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSL  240 (454)
T ss_dssp             SBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEES
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEEC
Confidence            34555  7899999999999999988754    557776654

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=93.79  E-value=0.075  Score=51.54  Aligned_cols=22  Identities=23%  Similarity=0.520  Sum_probs=19.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+.|.|+||+|||||..++.+.
T Consensus         5 kI~lvG~~nvGKSTL~n~L~g~   26 (272)
T 3b1v_A            5 EIALIGNPNSGKTSLFNLITGH   26 (272)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            3688999999999999999873

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=93.79  E-value=0.013  Score=61.67  Aligned_cols=26  Identities=23%  Similarity=0.462  Sum_probs=22.9

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcC
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.-++|.|.||+|||++++.+|..++
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34588999999999999999999874

>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=93.74  E-value=0.023  Score=56.80  Aligned_cols=23  Identities=43%  Similarity=0.660  Sum_probs=21.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+.|.||+|+||||+++.||+.+
T Consensus       131 vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          131 VIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999999876

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.73  E-value=0.017  Score=54.53  Aligned_cols=24  Identities=25%  Similarity=0.366  Sum_probs=21.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +.|.||.|+|||||+++|++.+..
T Consensus        33 ~~iiG~nGsGKSTLl~~l~Gl~~p   56 (224)
T 2pcj_A           33 VSIIGASGSGKSTLLYILGLLDAP   56 (224)
T ss_dssp             EEEEECTTSCHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCC
Confidence            779999999999999999987653

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=93.72  E-value=0.026  Score=49.15  Aligned_cols=22  Identities=27%  Similarity=0.345  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus         7 ~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4789999999999999999874

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=93.71  E-value=0.019  Score=54.62  Aligned_cols=25  Identities=32%  Similarity=0.458  Sum_probs=22.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -+.|.||.|+|||||++.|++.+..
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~~p   57 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLDKP   57 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCC
Confidence            3779999999999999999987754

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=93.68  E-value=0.025  Score=56.35  Aligned_cols=24  Identities=25%  Similarity=0.242  Sum_probs=21.4

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+.|.||+||||||+++.|+..++
T Consensus        94 iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           94 IIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            366889999999999999999875

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=93.67  E-value=0.019  Score=54.66  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=21.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+.|.||.|+|||||++.|++.+
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37899999999999999999876

>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=93.67  E-value=0.025  Score=55.57  Aligned_cols=23  Identities=35%  Similarity=0.518  Sum_probs=21.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.+.||+|+||||+++.|+..++
T Consensus        34 i~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           34 IFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            66899999999999999999875

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=93.60  E-value=0.037  Score=50.36  Aligned_cols=21  Identities=33%  Similarity=0.583  Sum_probs=18.9

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -++|.|+||+|||+|+..+++
T Consensus        25 ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           25 KVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            488999999999999999963

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=93.60  E-value=0.027  Score=56.40  Aligned_cols=26  Identities=31%  Similarity=0.623  Sum_probs=22.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcC
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +..+++.||+|+|||||+++|++.+.
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~~  196 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFIP  196 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            44588999999999999999999874

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=93.59  E-value=0.023  Score=50.78  Aligned_cols=22  Identities=18%  Similarity=0.320  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        23 ~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           23 KVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             EEEEEEETTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999999853

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=93.57  E-value=0.035  Score=58.44  Aligned_cols=22  Identities=36%  Similarity=0.572  Sum_probs=20.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++|.||+|+||||+++.||+.+
T Consensus       296 I~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          296 ILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCcccHHHHHHHHHHHh
Confidence            7789999999999999999876

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=93.57  E-value=0.024  Score=49.98  Aligned_cols=22  Identities=36%  Similarity=0.520  Sum_probs=19.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+.|.|+||+|||+|+.++++.
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999864

>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=93.56  E-value=0.2  Score=59.29  Aligned_cols=26  Identities=35%  Similarity=0.657  Sum_probs=22.8

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhcC
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      ++|  +.+.||.|+|||||++.|.+.+.
T Consensus       442 ~~G~~vaivG~sGsGKSTll~ll~~~~~  469 (1321)
T 4f4c_A          442 NAGQTVALVGSSGCGKSTIISLLLRYYD  469 (1321)
T ss_dssp             CTTCEEEEEECSSSCHHHHHHHHTTSSC
T ss_pred             cCCcEEEEEecCCCcHHHHHHHhccccc
Confidence            445  78999999999999999998874

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=93.55  E-value=0.041  Score=54.77  Aligned_cols=36  Identities=39%  Similarity=0.549  Sum_probs=28.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTT  261 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  261 (504)
                      ++-+++.||+|+||||++..+|..+   +..+..+++..
T Consensus       105 ~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~D~  143 (320)
T 1zu4_A          105 LNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAADT  143 (320)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCC
Confidence            3458899999999999999999876   56666665543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.51  E-value=0.029  Score=50.40  Aligned_cols=24  Identities=17%  Similarity=0.466  Sum_probs=20.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .-+++.|++|+|||+|+.++++.-
T Consensus        49 ~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           49 PSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999998753

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=93.50  E-value=0.052  Score=49.20  Aligned_cols=23  Identities=26%  Similarity=0.297  Sum_probs=20.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      --++|.|++|+|||+|++.+.+.
T Consensus        21 ~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           21 PRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            34899999999999999988764

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=93.50  E-value=0.065  Score=51.43  Aligned_cols=22  Identities=41%  Similarity=0.629  Sum_probs=19.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+.|.|+||+|||||+.++.+.
T Consensus         3 kI~lvG~~n~GKSTL~n~L~g~   24 (256)
T 3iby_A            3 HALLIGNPNCGKTTLFNALTNA   24 (256)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4788999999999999999864

>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=93.49  E-value=0.044  Score=55.25  Aligned_cols=32  Identities=38%  Similarity=0.424  Sum_probs=25.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      -+.|.|+||+||||++.+++..+   |..+..++.
T Consensus        81 ~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~  115 (355)
T 3p32_A           81 RVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAV  115 (355)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEec
Confidence            37889999999999999999876   556555544

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=93.46  E-value=0.022  Score=51.23  Aligned_cols=21  Identities=24%  Similarity=0.605  Sum_probs=19.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|+||+|||+|+..+++.
T Consensus         5 v~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            5 LMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999999873

>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=93.46  E-value=0.022  Score=53.34  Aligned_cols=25  Identities=28%  Similarity=0.563  Sum_probs=21.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -+.|.||.|+|||||.++|++.+..
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~~p   61 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYLKP   61 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            3779999999999999999997643

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.43  E-value=0.043  Score=55.03  Aligned_cols=25  Identities=40%  Similarity=0.623  Sum_probs=21.5

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++|  +.|.||||+|||||++++++.+
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            445  6789999999999999999865

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.40  E-value=0.023  Score=54.97  Aligned_cols=24  Identities=25%  Similarity=0.412  Sum_probs=21.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +.|.||.|+|||||+++|++.+..
T Consensus        35 ~~liG~nGsGKSTLlk~l~Gl~~p   58 (262)
T 1b0u_A           35 ISIIGSSGSGKSTFLRCINFLEKP   58 (262)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCC
Confidence            779999999999999999998754

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=93.38  E-value=0.059  Score=54.28  Aligned_cols=32  Identities=28%  Similarity=0.410  Sum_probs=26.6

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .+|  +.|.||+|+|||+|++.|++....+...+
T Consensus        69 ~~Gq~~gIiG~nGaGKTTLl~~I~g~~~~~~g~i  102 (347)
T 2obl_A           69 GIGQRIGIFAGSGVGKSTLLGMICNGASADIIVL  102 (347)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHSCCSEEEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCCCEEEE
Confidence            566  78999999999999999999987664433

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=93.38  E-value=0.017  Score=52.79  Aligned_cols=21  Identities=19%  Similarity=0.474  Sum_probs=19.1

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -+++.|+||+|||+|+.++.+
T Consensus        27 ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           27 KLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             EEEEEEETTSSHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            488999999999999999975

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=93.38  E-value=0.04  Score=51.66  Aligned_cols=30  Identities=27%  Similarity=0.225  Sum_probs=24.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +.|.||+|+||||+++.++..++.++..+.
T Consensus         8 i~~eG~~g~GKst~~~~l~~~l~~~~~~~~   37 (216)
T 3tmk_A            8 ILIEGLDRTGKTTQCNILYKKLQPNCKLLK   37 (216)
T ss_dssp             EEEEECSSSSHHHHHHHHHHHHCSSEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcccceEEE
Confidence            567899999999999999999987544333

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=93.37  E-value=0.033  Score=51.39  Aligned_cols=21  Identities=29%  Similarity=0.586  Sum_probs=19.3

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -+++.|++|+|||+|+.++.+
T Consensus        36 ki~vvG~~~vGKSsli~~l~~   56 (214)
T 2j1l_A           36 KVVLVGDGGCGKTSLLMVFAD   56 (214)
T ss_dssp             EEEEEECTTSSHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHc
Confidence            588999999999999999975

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.35  E-value=0.023  Score=60.94  Aligned_cols=26  Identities=38%  Similarity=0.584  Sum_probs=22.9

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhcC
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      .+|  +.|.||+|+||||++++||+.++
T Consensus       367 ~~G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          367 RQGFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             GSCEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCChHHHHHHHHHHhhc
Confidence            355  77899999999999999999885

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=93.33  E-value=0.033  Score=48.60  Aligned_cols=22  Identities=18%  Similarity=0.321  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            8 KVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4789999999999999999864

>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=93.31  E-value=0.023  Score=54.65  Aligned_cols=24  Identities=46%  Similarity=0.830  Sum_probs=21.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +.|.||.|+|||||.++|++.+..
T Consensus        36 ~~liG~nGsGKSTLlk~l~Gl~~p   59 (257)
T 1g6h_A           36 TLIIGPNGSGKSTLINVITGFLKA   59 (257)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCC
Confidence            779999999999999999997753

>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=93.31  E-value=0.024  Score=57.37  Aligned_cols=23  Identities=30%  Similarity=0.686  Sum_probs=20.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|||||||.++||+...
T Consensus        33 ~~llGpsGsGKSTLLr~iaGl~~   55 (359)
T 3fvq_A           33 LFIIGASGCGKTTLLRCLAGFEQ   55 (359)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCchHHHHHHHHhcCCC
Confidence            67899999999999999999763

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.30  E-value=0.079  Score=49.13  Aligned_cols=45  Identities=29%  Similarity=0.473  Sum_probs=29.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc--CCcEEEEeccccC-ChHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL--NYDVYDLELTTVQ-DNSELRSLLI  273 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l--~~~i~~l~~~~~~-~~~~l~~l~~  273 (504)
                      +.|-|+.|+||||.++.++..|  +.+++...-..-. ....+++++.
T Consensus         5 I~~EG~dGsGKsTq~~~L~~~L~~~~~v~~~~eP~~t~~g~~ir~~l~   52 (205)
T 4hlc_A            5 ITFEGPEGSGKTTVINEVYHRLVKDYDVIMTREPGGVPTGEEIRKIVL   52 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTTTSCEEEEESSTTCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHCCCCEEEeeCCCCChHHHHHHHHHh
Confidence            4578999999999999999988  4555544332211 1244555544

>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=93.26  E-value=0.025  Score=53.50  Aligned_cols=24  Identities=21%  Similarity=0.397  Sum_probs=21.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+.|.||.|+|||||.+.|++.+.
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~~   59 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGELE   59 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc
Confidence            377999999999999999999764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=93.26  E-value=0.034  Score=56.34  Aligned_cols=25  Identities=24%  Similarity=0.485  Sum_probs=22.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      .-++|.||+|+|||||+++|++.+.
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3478999999999999999999874

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.25  E-value=0.028  Score=54.61  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=20.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||+|+|||||+++|++...
T Consensus         5 v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            5 IMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            67899999999999999999764

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=93.24  E-value=0.035  Score=49.01  Aligned_cols=22  Identities=23%  Similarity=0.489  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        10 ~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A           10 KVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4889999999999999999764

>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=93.24  E-value=0.025  Score=55.16  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=21.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|+|||||+++|++.+.
T Consensus        37 ~~iiGpnGsGKSTLl~~l~Gl~~   59 (275)
T 3gfo_A           37 TAILGGNGVGKSTLFQNFNGILK   59 (275)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCCC
Confidence            78999999999999999998764

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=93.23  E-value=0.022  Score=53.89  Aligned_cols=23  Identities=43%  Similarity=0.472  Sum_probs=20.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|+|||+|.++|+..+.
T Consensus        30 ~~i~GpnGsGKSTll~~i~g~~~   52 (227)
T 1qhl_A           30 TTLSGGNGAGKSTTMAAFVTALI   52 (227)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhcccc
Confidence            56899999999999999999874

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=93.22  E-value=0.13  Score=58.42  Aligned_cols=21  Identities=33%  Similarity=0.335  Sum_probs=18.7

Q ss_pred             ccccccCCCCCcHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMA  247 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA  247 (504)
                      +-++|.||.|+||||+.+.+|
T Consensus       663 ~i~~ItGpNGsGKSTlLr~ia  683 (934)
T 3thx_A          663 MFHIITGPNMGGKSTYIRQTG  683 (934)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            348899999999999999985

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=93.21  E-value=0.031  Score=48.76  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=19.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|+||+|||+|+.++.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            5 KILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            4789999999999999999864

>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=93.18  E-value=0.026  Score=53.86  Aligned_cols=24  Identities=33%  Similarity=0.587  Sum_probs=21.4

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+.|.||.|+|||||++.|++.+.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~~   53 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERFYQ   53 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            378999999999999999998763

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=93.18  E-value=0.033  Score=56.44  Aligned_cols=23  Identities=30%  Similarity=0.470  Sum_probs=21.2

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+.|.||.|+||||+++.||+.+
T Consensus       159 vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          159 VIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCChHHHHHHHHHhhc
Confidence            47899999999999999999976

>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=93.14  E-value=0.026  Score=54.59  Aligned_cols=25  Identities=28%  Similarity=0.614  Sum_probs=22.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -+.|.||.|+|||||++.|++.+..
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl~~p   76 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLLEDF   76 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCC
Confidence            3779999999999999999998753

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=93.13  E-value=0.03  Score=57.09  Aligned_cols=23  Identities=35%  Similarity=0.668  Sum_probs=20.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|||||||.+.||+...
T Consensus        32 ~~llGpsGsGKSTLLr~iaGl~~   54 (381)
T 3rlf_A           32 VVFVGPSGCGKSTLLRMIAGLET   54 (381)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEcCCCchHHHHHHHHHcCCC
Confidence            67899999999999999999763

>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=93.12  E-value=0.026  Score=54.01  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=21.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +.|.||.|+|||||++.|++.+..
T Consensus        38 ~~i~G~nGsGKSTLl~~l~Gl~~p   61 (247)
T 2ff7_A           38 IGIVGRSGSGKSTLTKLIQRFYIP   61 (247)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCC
Confidence            779999999999999999998743

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.12  E-value=0.03  Score=56.59  Aligned_cols=23  Identities=35%  Similarity=0.628  Sum_probs=20.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|||||||.+.||+.+.
T Consensus        44 ~~llGpnGsGKSTLLr~iaGl~~   66 (355)
T 1z47_A           44 VGLLGPSGSGKTTILRLIAGLER   66 (355)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhCCCC
Confidence            67899999999999999998763

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.11  E-value=0.048  Score=57.75  Aligned_cols=34  Identities=18%  Similarity=0.344  Sum_probs=27.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      ++-+++.|+||+||||++..+|..+   |..+..+++
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            3458899999999999999999776   666666665

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=93.10  E-value=0.12  Score=52.62  Aligned_cols=32  Identities=28%  Similarity=0.510  Sum_probs=25.4

Q ss_pred             HHHHHhh---ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          219 EEIKKDL---KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       219 ~~i~~~l---~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -++++.+   .||  .++.||||||||+|+..||+..
T Consensus       163 iraID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i  199 (427)
T 3l0o_A          163 TRLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGI  199 (427)
T ss_dssp             HHHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHH
T ss_pred             chhhhhcccccCCceEEEecCCCCChhHHHHHHHHHH
Confidence            3555555   455  8999999999999999998854

>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=93.09  E-value=0.032  Score=53.45  Aligned_cols=21  Identities=43%  Similarity=0.534  Sum_probs=19.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +.|.||.|+|||||++.|++.
T Consensus        32 ~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           32 HALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            779999999999999999996

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.09  E-value=0.033  Score=49.75  Aligned_cols=22  Identities=36%  Similarity=0.520  Sum_probs=20.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -++|.|++|+|||+|+.++++.
T Consensus         9 ~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            9 EIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999873

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.08  E-value=0.031  Score=56.65  Aligned_cols=23  Identities=39%  Similarity=0.738  Sum_probs=20.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|||||||.+.||+.+.
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~~   54 (362)
T 2it1_A           32 MALLGPSGSGKSTLLYTIAGIYK   54 (362)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCchHHHHHHHHhcCCC
Confidence            67899999999999999998763

>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=93.07  E-value=0.027  Score=53.63  Aligned_cols=24  Identities=33%  Similarity=0.567  Sum_probs=21.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +.|.||.|+|||||.+.|++.+..
T Consensus        35 ~~l~G~nGsGKSTLl~~l~Gl~~p   58 (240)
T 1ji0_A           35 VTLIGANGAGKTTTLSAIAGLVRA   58 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCC
Confidence            779999999999999999998754

>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=93.05  E-value=0.033  Score=53.94  Aligned_cols=23  Identities=39%  Similarity=0.514  Sum_probs=20.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+.|.||.|+|||||++.|++.+
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl~   70 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGRE   70 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTCT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37799999999999999999974

>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=93.02  E-value=0.032  Score=56.52  Aligned_cols=23  Identities=35%  Similarity=0.637  Sum_probs=20.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|||||||.+.||+...
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~~   54 (359)
T 2yyz_A           32 VALLGPSGCGKTTTLLMLAGIYK   54 (359)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSSC
T ss_pred             EEEEcCCCchHHHHHHHHHCCCC
Confidence            67899999999999999998763

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=93.01  E-value=0.071  Score=55.44  Aligned_cols=31  Identities=32%  Similarity=0.532  Sum_probs=25.9

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      ++|  +.|.||+|||||+|++.||+....+...
T Consensus       155 ~~Gq~~~IvG~sGsGKSTLl~~Iag~~~~~~G~  187 (438)
T 2dpy_A          155 GRGQRMGLFAGSGVGKSVLLGMMARYTRADVIV  187 (438)
T ss_dssp             BTTCEEEEEECTTSSHHHHHHHHHHHSCCSEEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcccCCCeEE
Confidence            566  7799999999999999999998665433

>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=93.00  E-value=0.044  Score=52.54  Aligned_cols=25  Identities=44%  Similarity=0.643  Sum_probs=22.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      +.|.||.|+|||||.+.|++.+...
T Consensus        29 ~~liG~NGsGKSTLlk~l~Gl~~p~   53 (249)
T 2qi9_C           29 LHLVGPNGAGKSTLLARMAGMTSGK   53 (249)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCCE
T ss_pred             EEEECCCCCcHHHHHHHHhCCCCCC
Confidence            7799999999999999999987544

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=92.97  E-value=0.028  Score=54.59  Aligned_cols=25  Identities=40%  Similarity=0.539  Sum_probs=22.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -+.|.||.|+|||||++.|++.+..
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~~p   71 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLYQP   71 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            3789999999999999999998753

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=92.97  E-value=0.033  Score=56.68  Aligned_cols=23  Identities=35%  Similarity=0.676  Sum_probs=20.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|||||||.+.||+.+.
T Consensus        40 ~~llGpnGsGKSTLLr~iaGl~~   62 (372)
T 1v43_A           40 LVLLGPSGCGKTTTLRMIAGLEE   62 (372)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCChHHHHHHHHHcCCC
Confidence            67899999999999999998764

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=92.97  E-value=0.021  Score=51.56  Aligned_cols=24  Identities=29%  Similarity=0.451  Sum_probs=21.4

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+.+.||+|+|||||++.|++.+.
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            467899999999999999999874

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=92.95  E-value=0.029  Score=54.17  Aligned_cols=24  Identities=33%  Similarity=0.535  Sum_probs=21.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+.|.||.|+|||||++.|++.+.
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl~~   71 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRFYD   71 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            378999999999999999999764

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=92.93  E-value=0.029  Score=54.74  Aligned_cols=24  Identities=29%  Similarity=0.681  Sum_probs=21.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +.|.||.|+|||||++.|++.+..
T Consensus        50 ~~liG~NGsGKSTLlk~l~Gl~~p   73 (279)
T 2ihy_A           50 WILYGLNGAGKTTLLNILNAYEPA   73 (279)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCcHHHHHHHHhCCCCC
Confidence            779999999999999999998753

>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=92.86  E-value=0.029  Score=54.34  Aligned_cols=23  Identities=35%  Similarity=0.759  Sum_probs=21.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|+|||||+++|++.+.
T Consensus        40 ~~liG~nGsGKSTLl~~l~Gl~~   62 (266)
T 4g1u_C           40 VAIIGPNGAGKSTLLRLLTGYLS   62 (266)
T ss_dssp             EEEECCTTSCHHHHHHHHTSSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCC
Confidence            77999999999999999999774

>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=92.86  E-value=0.035  Score=56.56  Aligned_cols=22  Identities=36%  Similarity=0.705  Sum_probs=20.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.|.||.|||||||.+.||+.+
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           32 MILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCcHHHHHHHHHHcCC
Confidence            7789999999999999999876

>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=92.84  E-value=0.55  Score=51.73  Aligned_cols=18  Identities=28%  Similarity=0.410  Sum_probs=16.0

Q ss_pred             cccccccCCCCCcHHHHH
Q 037859          226 KKGYLLYGPPGTGKSTMI  243 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla  243 (504)
                      .+.+++.||+|+|||..+
T Consensus        39 ~~~~lv~apTGsGKT~~~   56 (720)
T 2zj8_A           39 GKNALISIPTASGKTLIA   56 (720)
T ss_dssp             TCEEEEECCGGGCHHHHH
T ss_pred             CCcEEEEcCCccHHHHHH
Confidence            566999999999999877

>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=92.79  E-value=0.065  Score=50.91  Aligned_cols=33  Identities=30%  Similarity=0.580  Sum_probs=26.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc--CCcEEEEecc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL--NYDVYDLELT  260 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l--~~~i~~l~~~  260 (504)
                      -+++.|++|+||||++..+|..+  +..+..+++.
T Consensus        16 i~~~~GkgGvGKTTl~~~La~~l~~g~~v~vvd~D   50 (262)
T 1yrb_A           16 IVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLD   50 (262)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTTTSCEEEEECC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHCCCeEEEEeCC
Confidence            46788999999999999999776  5566655543

>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=92.78  E-value=0.032  Score=53.76  Aligned_cols=25  Identities=28%  Similarity=0.550  Sum_probs=21.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -+.|.||.|+|||||.+.|++.+..
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~~p   67 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLIKP   67 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            3779999999999999999987643

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=92.77  E-value=0.029  Score=56.54  Aligned_cols=23  Identities=30%  Similarity=0.762  Sum_probs=21.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|||||||.+.||+...
T Consensus        29 ~~llGpnGsGKSTLLr~iaGl~~   51 (348)
T 3d31_A           29 FVILGPTGAGKTLFLELIAGFHV   51 (348)
T ss_dssp             EEEECCCTHHHHHHHHHHHTSSC
T ss_pred             EEEECCCCccHHHHHHHHHcCCC
Confidence            67899999999999999998764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.76  E-value=0.041  Score=48.46  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=19.7

Q ss_pred             ccccccCCCCCcHHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      .-+++.|++|+|||+|+.++.+
T Consensus         9 ~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            9 PVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3488999999999999999976

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=92.72  E-value=0.032  Score=53.59  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=21.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|+|||||.+.|++.+.
T Consensus        34 ~~l~G~nGsGKSTLl~~l~Gl~~   56 (253)
T 2nq2_C           34 LAVLGQNGCGKSTLLDLLLGIHR   56 (253)
T ss_dssp             EEEECCSSSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            77999999999999999998764

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=92.70  E-value=0.044  Score=48.05  Aligned_cols=22  Identities=36%  Similarity=0.567  Sum_probs=19.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .+++||.|+|||+++.||.-.+
T Consensus        26 ~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999998655

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=92.70  E-value=0.058  Score=56.13  Aligned_cols=35  Identities=23%  Similarity=0.293  Sum_probs=27.0

Q ss_pred             hccc--ccccCCCCCcHHHHHHHHHHhc----CCcEEEEec
Q 037859          225 LKKG--YLLYGPPGTGKSTMIAAMANFL----NYDVYDLEL  259 (504)
Q Consensus       225 l~rg--~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~  259 (504)
                      +++|  +++.|+||+|||+++..+|...    +.++..+++
T Consensus       197 l~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~sl  237 (444)
T 2q6t_A          197 LGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSL  237 (444)
T ss_dssp             CCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEES
T ss_pred             cCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEC
Confidence            3455  7899999999999999887643    556776655

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=92.69  E-value=0.038  Score=52.54  Aligned_cols=23  Identities=35%  Similarity=0.423  Sum_probs=20.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+.|.||+|+||||+++.++..+
T Consensus        29 ~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           29 FIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             EEEEEESTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36788999999999999999877

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=92.66  E-value=0.065  Score=55.67  Aligned_cols=37  Identities=24%  Similarity=0.367  Sum_probs=29.9

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc----CCcEEEEecccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL----NYDVYDLELTTV  262 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~~  262 (504)
                      ++.+++.|++|+||||++..+|..+    |..+..+++...
T Consensus       100 ~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~  140 (433)
T 2xxa_A          100 PAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVY  140 (433)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCC
Confidence            4668889999999999999999765    677777776643

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=92.61  E-value=0.19  Score=51.24  Aligned_cols=25  Identities=28%  Similarity=0.620  Sum_probs=21.9

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .+|  +++.||||||||+|++.||+..
T Consensus       172 ~rGQr~~IvG~sG~GKTtLl~~Iar~i  198 (422)
T 3ice_A          172 GRGQRGLIVAPPKAGKTMLLQNIAQSI  198 (422)
T ss_dssp             BTTCEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             cCCcEEEEecCCCCChhHHHHHHHHHH
Confidence            455  8999999999999999998865

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=92.59  E-value=0.034  Score=53.79  Aligned_cols=25  Identities=32%  Similarity=0.555  Sum_probs=21.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -+.|.||.|+|||||++.|++.+..
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~~p   59 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLIEP   59 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCC
Confidence            3779999999999999999987643

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=92.55  E-value=0.038  Score=50.57  Aligned_cols=23  Identities=13%  Similarity=0.264  Sum_probs=20.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      --+++.|++|+|||+|+.++.+.
T Consensus        31 ~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           31 IKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            35899999999999999999853

>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=92.54  E-value=0.039  Score=49.09  Aligned_cols=21  Identities=33%  Similarity=0.623  Sum_probs=19.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +.|.|+||+|||||+.++++.
T Consensus         7 i~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            7 VVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999874

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=92.53  E-value=0.043  Score=49.06  Aligned_cols=22  Identities=18%  Similarity=0.344  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|+||+|||+|+.++.+.
T Consensus         9 ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            9 KIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999874

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=92.52  E-value=0.11  Score=49.68  Aligned_cols=22  Identities=27%  Similarity=0.454  Sum_probs=19.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||||+.++.+.
T Consensus        38 ~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           38 TVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999864

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=92.48  E-value=0.037  Score=53.56  Aligned_cols=22  Identities=36%  Similarity=0.865  Sum_probs=20.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.|.||.|+|||||.+.|++.+
T Consensus        33 ~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           33 VIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7789999999999999999876

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=92.46  E-value=0.02  Score=52.77  Aligned_cols=22  Identities=32%  Similarity=0.427  Sum_probs=19.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      --++|.|++|+|||+|+.++.+
T Consensus        12 ~ki~vvG~~~~GKSsli~~l~~   33 (218)
T 4djt_A           12 YKICLIGDGGVGKTTYINRVLD   33 (218)
T ss_dssp             EEEEEECCTTSSHHHHHCBCTT
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3588999999999999999874

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=92.42  E-value=0.058  Score=53.09  Aligned_cols=36  Identities=28%  Similarity=0.341  Sum_probs=28.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTV  262 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  262 (504)
                      +-+++.||+|+|||+++..+|..+   +..+..+++...
T Consensus        99 ~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~  137 (297)
T 1j8m_F           99 YVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVY  137 (297)
T ss_dssp             EEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCC
Confidence            346788999999999999999876   666776666543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.39  E-value=0.048  Score=48.02  Aligned_cols=21  Identities=33%  Similarity=0.657  Sum_probs=19.0

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -+++.|+||+|||+|+.++.+
T Consensus        11 ~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B           11 KLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999965

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=92.37  E-value=0.073  Score=53.38  Aligned_cols=32  Identities=19%  Similarity=0.282  Sum_probs=26.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      ++|.|+||+|||+|+..+|...   +.++.++++.
T Consensus        49 iiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSlE   83 (338)
T 4a1f_A           49 VIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSLE   83 (338)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEESS
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeCC
Confidence            8899999999999999998764   6777666553

>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=92.30  E-value=0.032  Score=43.74  Aligned_cols=43  Identities=9%  Similarity=-0.027  Sum_probs=30.3

Q ss_pred             CHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhhC
Q 037859          379 CFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENLM  421 (504)
Q Consensus       379 ~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l~  421 (504)
                      +.++|..|++.++..........+..+++.+ |||+|||..++.
T Consensus         2 d~~~R~~Il~~~l~~~~~~~~vdl~~la~~t~G~SGADi~~l~~   45 (83)
T 3aji_B            2 DRRQKRLIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQ   45 (83)
T ss_dssp             CHHHHHHHHHHHHTTSCBCTTCCTHHHHTSSCCCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhCCCCCCcccCHHHHHHHcCCCCHHHHHHHHH
Confidence            6789999999999754432222344555555 999999998764

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=92.30  E-value=0.052  Score=51.14  Aligned_cols=24  Identities=29%  Similarity=0.433  Sum_probs=21.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +.|.|++|+|||++++.++..++.
T Consensus        24 i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           24 ITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            567899999999999999987654

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=92.29  E-value=0.029  Score=56.69  Aligned_cols=23  Identities=30%  Similarity=0.622  Sum_probs=20.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|||||||.+.||+...
T Consensus        34 ~~llGpnGsGKSTLLr~iaGl~~   56 (353)
T 1oxx_K           34 FGILGPSGAGKTTFMRIIAGLDV   56 (353)
T ss_dssp             EEEECSCHHHHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhCCCC
Confidence            67899999999999999998763

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=92.27  E-value=0.041  Score=49.47  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=20.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           24 PEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45899999999999999999764

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=92.27  E-value=0.048  Score=50.33  Aligned_cols=25  Identities=20%  Similarity=0.340  Sum_probs=21.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +-+++.|+||+|||||+.+++..+.
T Consensus        31 ~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           31 VAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            3578999999999999999998763

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=92.27  E-value=0.056  Score=47.91  Aligned_cols=22  Identities=14%  Similarity=0.308  Sum_probs=19.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|+||+|||+|+.++.+.
T Consensus         7 ~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999999853

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=92.26  E-value=0.16  Score=49.04  Aligned_cols=22  Identities=27%  Similarity=0.462  Sum_probs=19.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .+.|.|+||+|||||+.++.+.
T Consensus         5 ~I~lvG~~n~GKSTLin~l~g~   26 (274)
T 3i8s_A            5 TIGLIGNPNSGKTTLFNQLTGS   26 (274)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999864

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=92.25  E-value=0.039  Score=51.04  Aligned_cols=22  Identities=32%  Similarity=0.522  Sum_probs=18.7

Q ss_pred             cccccCCCCCcHHHHHHH-HHHh
Q 037859          228 GYLLYGPPGTGKSTMIAA-MANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~a-iA~~  249 (504)
                      -+++.|++|+|||+|+.+ +.+.
T Consensus        17 ki~v~G~~~~GKSsli~~~~~~~   39 (221)
T 3gj0_A           17 KLVLVGDGGTGKTTFVKRHLTGE   39 (221)
T ss_dssp             EEEEEECTTSSHHHHHTTBHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            489999999999999999 4443

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=92.22  E-value=0.049  Score=50.92  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=20.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.|.|++|+||||.++.++..+
T Consensus         6 i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            6 IVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5678999999999999999887

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=92.20  E-value=0.04  Score=49.14  Aligned_cols=21  Identities=29%  Similarity=0.436  Sum_probs=19.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|++|+|||+|+.++.+.
T Consensus         4 i~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            4 IIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            688999999999999999864

>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=92.17  E-value=0.042  Score=56.27  Aligned_cols=23  Identities=43%  Similarity=0.674  Sum_probs=20.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|||||||.+.||+.+.
T Consensus        50 ~~llGpsGsGKSTLLr~iaGl~~   72 (390)
T 3gd7_A           50 VGLLGRTGSGKSTLLSAFLRLLN   72 (390)
T ss_dssp             EEEEESTTSSHHHHHHHHHTCSE
T ss_pred             EEEECCCCChHHHHHHHHhCCCC
Confidence            77999999999999999998653

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=92.14  E-value=0.06  Score=48.44  Aligned_cols=22  Identities=23%  Similarity=0.397  Sum_probs=19.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+..+.+.
T Consensus        23 ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           23 NLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            4899999999999999999864

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=92.10  E-value=0.06  Score=47.59  Aligned_cols=22  Identities=14%  Similarity=0.267  Sum_probs=19.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        10 ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D           10 KCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4889999999999999999864

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=92.04  E-value=0.021  Score=52.25  Aligned_cols=22  Identities=23%  Similarity=0.370  Sum_probs=19.4

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+.|.||+|+|||||++++++.
T Consensus        28 ~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           28 EVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             EEEEEECTTSSHHHHHTTTCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998764

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=92.02  E-value=0.16  Score=46.71  Aligned_cols=32  Identities=31%  Similarity=0.344  Sum_probs=25.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      +.|.|+.|+||||.++.++..|   |.+++...-.
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~treP   37 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKREP   37 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECC
Confidence            3477999999999999999887   6676655443

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=92.01  E-value=0.047  Score=48.28  Aligned_cols=22  Identities=23%  Similarity=0.270  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|+||+|||+|+..+.+.
T Consensus         9 ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            9 RLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEECCGGGCHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999999874

>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=91.99  E-value=0.095  Score=51.45  Aligned_cols=35  Identities=23%  Similarity=0.336  Sum_probs=27.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      ++-+.+.||+|+|||+++..+|..+   +..+..+++.
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d  135 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAAD  135 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecCC
Confidence            4567788999999999999999876   5566655543

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=91.97  E-value=0.064  Score=48.19  Aligned_cols=22  Identities=18%  Similarity=0.175  Sum_probs=19.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -++|.|++|+|||+|+..+.+.
T Consensus        22 ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           22 KVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999888764

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=91.96  E-value=0.081  Score=56.61  Aligned_cols=30  Identities=37%  Similarity=0.458  Sum_probs=24.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC---CcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN---YDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~  258 (504)
                      ++|.|+||+|||++++.++..++   .+++.++
T Consensus       375 I~l~G~~GsGKSTia~~La~~L~~~G~~~~~ld  407 (546)
T 2gks_A          375 VWLTGLPCAGKSTIAEILATMLQARGRKVTLLD  407 (546)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             EEccCCCCCCHHHHHHHHHHHhhhcCCeEEEEC
Confidence            67899999999999999998774   4555554

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=91.94  E-value=0.064  Score=48.63  Aligned_cols=22  Identities=23%  Similarity=0.520  Sum_probs=20.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A           10 KVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4889999999999999999874

>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=91.93  E-value=0.15  Score=46.30  Aligned_cols=24  Identities=25%  Similarity=0.275  Sum_probs=18.0

Q ss_pred             cccccccCCCCCcHHHHH-HHHHHh
Q 037859          226 KKGYLLYGPPGTGKSTMI-AAMANF  249 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla-~aiA~~  249 (504)
                      .+.+++.+|+|+|||..+ ..+...
T Consensus        38 ~~~~li~~~TGsGKT~~~~~~~~~~   62 (207)
T 2gxq_A           38 GKDLIGQARTGTGKTLAFALPIAER   62 (207)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEECCCCChHHHHHHHHHHHH
Confidence            567999999999999863 334444

>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=91.91  E-value=0.21  Score=45.93  Aligned_cols=22  Identities=18%  Similarity=0.258  Sum_probs=17.6

Q ss_pred             cccccccCCCCCcHHHHHHHHH
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMA  247 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA  247 (504)
                      .+.+++.+|+|+|||..+-..+
T Consensus        51 ~~~~li~~~TGsGKT~~~~~~~   72 (220)
T 1t6n_A           51 GMDVLCQAKSGMGKTAVFVLAT   72 (220)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHH
T ss_pred             CCCEEEECCCCCchhhhhhHHH
Confidence            5679999999999998655444

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=91.88  E-value=0.066  Score=53.07  Aligned_cols=28  Identities=25%  Similarity=0.341  Sum_probs=23.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDV  254 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i  254 (504)
                      .+|+||.|++|+|||+++.++... |..+
T Consensus       144 g~~vl~~G~sG~GKSt~a~~l~~~-g~~l  171 (314)
T 1ko7_A          144 GVGVLITGDSGIGKSETALELIKR-GHRL  171 (314)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHhc-CCce
Confidence            578999999999999999999875 5443

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=91.85  E-value=0.052  Score=54.91  Aligned_cols=24  Identities=29%  Similarity=0.515  Sum_probs=21.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+.|.||+|+|||||+++|++...
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             EEEEECCCCccHHHHHHHHhcccc
Confidence            478999999999999999998654

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=91.83  E-value=0.09  Score=51.80  Aligned_cols=22  Identities=36%  Similarity=0.525  Sum_probs=19.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -++|.|+||+|||+|+.++.+.
T Consensus         5 KI~lvG~~~vGKSSLi~~l~~~   26 (307)
T 3r7w_A            5 KLLLMGRSGSGKSSMRSIIFSN   26 (307)
T ss_dssp             EEEEECCTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998654

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=91.80  E-value=0.12  Score=47.00  Aligned_cols=37  Identities=22%  Similarity=0.327  Sum_probs=26.3

Q ss_pred             cChhHHHHHHHhh-cccccccCCCCCcHHHHHHHHHHh
Q 037859          213 METKKKEEIKKDL-KKGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       213 ~~~~~k~~i~~~l-~rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +.+.+++.+-..+ .+.+++.+|+|+|||.++...+..
T Consensus        34 l~~~Q~~~i~~~~~~~~~li~~~tGsGKT~~~~~~~~~   71 (216)
T 3b6e_A           34 LRPYQMEVAQPALEGKNIIICLPTGSGKTRVAVYIAKD   71 (216)
T ss_dssp             CCHHHHHHHHHHHTTCCEEEECSCHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHhcCCCEEEEcCCCCCHHHHHHHHHHH
Confidence            3444444444333 467999999999999988877654

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=91.78  E-value=0.067  Score=48.74  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|+||+|||+|+.++.+.
T Consensus        22 ~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           22 KILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999999853

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=91.78  E-value=0.068  Score=48.12  Aligned_cols=22  Identities=18%  Similarity=0.326  Sum_probs=20.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|+||+|||+|+.++.+.
T Consensus        25 ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           25 KIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            4899999999999999999874

>1knx_A Probable HPR(Ser) kinase/phosphatase; HPR kinase, HPR kinase/phosphatase, HPRK/P, P-loop, walker A BOX, catabolite repression; 2.50A {Mycoplasma pneumoniae} SCOP: c.98.2.1 c.91.1.2

Probab=91.78  E-value=0.049  Score=53.96  Aligned_cols=29  Identities=34%  Similarity=0.345  Sum_probs=23.7

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      .+|+||.||+|+|||++|.++.. -|..++
T Consensus       147 g~gvli~G~sG~GKStlal~l~~-~G~~lv  175 (312)
T 1knx_A          147 GVGVLLTGRSGIGKSECALDLIN-KNHLFV  175 (312)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHT-TTCEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH-cCCEEE
Confidence            68999999999999999998865 354443

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=91.69  E-value=0.059  Score=56.46  Aligned_cols=25  Identities=20%  Similarity=0.477  Sum_probs=22.3

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.|  +.|.||.|+|||||++.|++.+
T Consensus       136 ~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          136 FEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            445  8899999999999999999986

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=91.67  E-value=0.045  Score=53.70  Aligned_cols=22  Identities=23%  Similarity=0.486  Sum_probs=20.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.|.||.|+|||||++.|++.+
T Consensus        67 ~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           67 LAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             EEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            7899999999999999999876

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=91.66  E-value=0.31  Score=51.12  Aligned_cols=37  Identities=30%  Similarity=0.402  Sum_probs=28.6

Q ss_pred             HHHHhh---ccc--ccccCCCCCcHHHH-HHHHHHhcCCcEEE
Q 037859          220 EIKKDL---KKG--YLLYGPPGTGKSTM-IAAMANFLNYDVYD  256 (504)
Q Consensus       220 ~i~~~l---~rg--~LL~GPpGtGKTsl-a~aiA~~l~~~i~~  256 (504)
                      ++++.+   .||  .++.|++|||||+| ...|++..+.+++.
T Consensus       151 raID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~~~dv~~  193 (502)
T 2qe7_A          151 KAIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQKGQDVIC  193 (502)
T ss_dssp             HHHHHSSCCBTTCBCEEEECSSSCHHHHHHHHHHGGGSCSEEE
T ss_pred             eecccccccccCCEEEEECCCCCCchHHHHHHHHHhhcCCcEE
Confidence            344544   455  89999999999999 57999998877543

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=91.64  E-value=0.054  Score=48.29  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-+++.|+||+|||+|+.++.+.
T Consensus        19 ~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           19 LRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            35899999999999999999753

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=90.93  E-value=0.033  Score=50.76  Aligned_cols=22  Identities=14%  Similarity=0.323  Sum_probs=19.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      --+++.|+||+|||+|+.++.+
T Consensus        31 ~ki~v~G~~~~GKSsli~~l~~   52 (204)
T 3th5_A           31 IKCVVVGDGAVGKTCLLISYTT   52 (204)
Confidence            3589999999999999988864

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=91.63  E-value=0.064  Score=47.49  Aligned_cols=21  Identities=19%  Similarity=0.320  Sum_probs=19.2

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -++|.|+||+|||+|+.++.+
T Consensus         8 ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            8 KIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHc
Confidence            488999999999999999985

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=91.62  E-value=0.089  Score=51.72  Aligned_cols=35  Identities=34%  Similarity=0.400  Sum_probs=26.1

Q ss_pred             HHHHHHhh-cccccccCCCCCcHHHHHHHHHHhcCC
Q 037859          218 KEEIKKDL-KKGYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       218 k~~i~~~l-~rg~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      .+++...+ ..-+.|.||+|+|||||+++|++....
T Consensus       160 v~~lf~~l~geiv~l~G~sG~GKSTll~~l~g~~~~  195 (301)
T 1u0l_A          160 IEELKEYLKGKISTMAGLSGVGKSSLLNAINPGLKL  195 (301)
T ss_dssp             HHHHHHHHSSSEEEEECSTTSSHHHHHHHHSTTCCC
T ss_pred             HHHHHHHhcCCeEEEECCCCCcHHHHHHHhcccccc
Confidence            34444444 334678999999999999999987643

>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=91.57  E-value=0.21  Score=46.07  Aligned_cols=23  Identities=26%  Similarity=0.257  Sum_probs=17.5

Q ss_pred             cccccccCCCCCcHHHH-HHHHHH
Q 037859          226 KKGYLLYGPPGTGKSTM-IAAMAN  248 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsl-a~aiA~  248 (504)
                      .+.+++.+|+|+|||.. +-.+..
T Consensus        51 ~~~~lv~~pTGsGKT~~~~~~~l~   74 (224)
T 1qde_A           51 GHDVLAQAQSGTGKTGTFSIAALQ   74 (224)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCcHHHHHHHHHHH
Confidence            56799999999999976 333443

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=91.52  E-value=0.087  Score=54.88  Aligned_cols=37  Identities=22%  Similarity=0.229  Sum_probs=28.3

Q ss_pred             hhccc--ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          224 DLKKG--YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       224 ~l~rg--~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      -+++|  +++.|+||+|||+++..+|...   |.++..+++.
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSlE  234 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLE  234 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECSS
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEECC
Confidence            34555  8899999999999999887654   6677776553

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=91.42  E-value=0.073  Score=53.58  Aligned_cols=22  Identities=50%  Similarity=0.788  Sum_probs=20.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.|.||||+|||||..++++.+
T Consensus        77 v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           77 VGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6789999999999999999864

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=91.42  E-value=0.067  Score=49.54  Aligned_cols=23  Identities=26%  Similarity=0.541  Sum_probs=20.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -+++.|++|+|||+|+..++..+
T Consensus        40 ~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           40 AFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47788999999999999999875

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=91.42  E-value=0.068  Score=49.08  Aligned_cols=23  Identities=17%  Similarity=0.289  Sum_probs=20.6

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      --+++.|++|+|||+|+.++++.
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            35899999999999999999874

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=91.40  E-value=0.11  Score=53.77  Aligned_cols=35  Identities=23%  Similarity=0.336  Sum_probs=28.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      ++.+++.||+|+||||++..+|..+   +..+..+++.
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D  135 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAAD  135 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeecc
Confidence            4567888999999999999999876   5566666654

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=91.36  E-value=0.15  Score=46.81  Aligned_cols=23  Identities=30%  Similarity=0.374  Sum_probs=20.3

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        30 ~~i~v~G~~~~GKSslin~l~~~   52 (223)
T 4dhe_A           30 PEIAFAGRSNAGKSTAINVLCNQ   52 (223)
T ss_dssp             CEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCC
Confidence            35889999999999999999765

>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=91.26  E-value=0.14  Score=46.98  Aligned_cols=31  Identities=16%  Similarity=0.140  Sum_probs=24.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      -++++||+|+|||+.+..+|..+   +..++.+.
T Consensus        10 i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k   43 (191)
T 1xx6_A           10 VEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFK   43 (191)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE
Confidence            36789999999999888887765   66665553

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=91.23  E-value=0.11  Score=51.01  Aligned_cols=33  Identities=27%  Similarity=0.395  Sum_probs=24.8

Q ss_pred             HHHHHHhh-cccccccCCCCCcHHHHHHHHHHhcC
Q 037859          218 KEEIKKDL-KKGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       218 k~~i~~~l-~rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      .+++.+.+ ..-+.|.||+|+|||||+++|+ .+.
T Consensus       156 i~~L~~~l~G~i~~l~G~sG~GKSTLln~l~-~~~  189 (302)
T 2yv5_A          156 IDELVDYLEGFICILAGPSGVGKSSILSRLT-GEE  189 (302)
T ss_dssp             HHHHHHHTTTCEEEEECSTTSSHHHHHHHHH-SCC
T ss_pred             HHHHHhhccCcEEEEECCCCCCHHHHHHHHH-Hhh
Confidence            34455554 3346789999999999999999 654

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=91.21  E-value=0.076  Score=49.84  Aligned_cols=28  Identities=29%  Similarity=0.521  Sum_probs=22.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +.|.||.|+||||+++.|++. +..+...
T Consensus        23 i~i~G~~GsGKSTl~~~L~~~-~g~v~~~   50 (230)
T 2vp4_A           23 VLIEGNIGSGKTTYLNHFEKY-KNDICLL   50 (230)
T ss_dssp             EEEECSTTSCHHHHHHTTGGG-TTTEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHhc-cCCeEEE
Confidence            668899999999999999987 4444443

>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=91.18  E-value=0.069  Score=56.82  Aligned_cols=26  Identities=27%  Similarity=0.424  Sum_probs=22.2

Q ss_pred             hccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          225 LKKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       225 l~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +++|  ++|.||||+|||+|++.+|...
T Consensus       278 i~~G~i~~i~G~~GsGKSTLl~~l~g~~  305 (525)
T 1tf7_A          278 FFKDSIILATGATGTGKTLLVSRFVENA  305 (525)
T ss_dssp             EESSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3555  7899999999999999998765

>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=91.17  E-value=0.073  Score=53.95  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=20.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +-|.||.|+|||||+++|++.+.
T Consensus        57 ~~IiGpnGaGKSTLlr~i~GL~~   79 (366)
T 3tui_C           57 YGVIGASGAGKSTLIRCVNLLER   79 (366)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEcCCCchHHHHHHHHhcCCC
Confidence            77999999999999999998764

>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=91.05  E-value=0.12  Score=51.80  Aligned_cols=30  Identities=33%  Similarity=0.514  Sum_probs=23.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      +.+.||||+||||++.+++..+   +..+..++
T Consensus        59 i~i~G~~g~GKSTl~~~l~~~~~~~~~~v~v~~   91 (341)
T 2p67_A           59 LGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIA   91 (341)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence            6789999999999999999765   44444443

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=91.02  E-value=0.09  Score=47.60  Aligned_cols=22  Identities=36%  Similarity=0.537  Sum_probs=19.5

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -++|.|+||+|||+|+..+++.
T Consensus         8 kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            8 RVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999999863

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=91.00  E-value=0.052  Score=53.74  Aligned_cols=25  Identities=36%  Similarity=0.663  Sum_probs=22.0

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -+.|.||.|+|||||++.|++.+..
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl~~p  106 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRFYDI  106 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCchHHHHHHHHHcCCCC
Confidence            3789999999999999999997743

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=90.91  E-value=0.053  Score=48.05  Aligned_cols=22  Identities=27%  Similarity=0.454  Sum_probs=19.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      .-+++.|++|+|||+|+.++.+
T Consensus        19 ~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           19 LRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3589999999999999998863

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=90.90  E-value=0.079  Score=47.92  Aligned_cols=22  Identities=18%  Similarity=0.389  Sum_probs=19.2

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        22 ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           22 KCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999999753

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=90.89  E-value=0.085  Score=47.39  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=20.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -+++.|++|+|||+|+.++.+.
T Consensus        20 ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           20 KCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999999865

---

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	504
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	3e-24
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	3e-22
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	4e-21
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	2e-14
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	3e-13
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	3e-09
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	2e-08
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	1e-05
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	3e-05
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	4e-05
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	4e-05
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	8e-05
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	2e-04
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	8e-04
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	0.001
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	0.001
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	0.001
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	0.003
d1iqpa2	231	c.37.1.20 (A:2-232) Replication factor C {Archaeon	0.003

>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 = 99.2 bits (247), Expect = 3e-24
 Identities = 53/252 (21%), Positives = 95/252 (37%), Gaps = 46/252 (18%)

Query: 201 FFEHPATFDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELT 260
           F ++P+ F           E+   + KG LL GPPG GK+ +  A+A            +
Sbjct: 27  FLKNPSRF----------HEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGS 76

Query: 261 TVQDN------SELRSL--LIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPI 312
              +       + +R L       +  I+ I++ID    +  +R                
Sbjct: 77  DFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDA---VGRKRG--------------- 118

Query: 313 EKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKH 372
                  GG+ + + TL+ LL  +DG    +    +++  TN  D LDPAL+R GR D+ 
Sbjct: 119 ---SGVGGGNDEREQTLNQLLVEMDGFEKDTA--IVVMAATNRPDILDPALLRPGRFDRQ 173

Query: 373 IEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVA----ENLMPKCDED 427
           I +     +  + + + +           +  +   T     AD+     E  +    E 
Sbjct: 174 IAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG 233

Query: 428 DTETCLKNLIEA 439
             +  +K+L EA
Sbjct: 234 RRKITMKDLEEA 245

>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 = 93.7 bits (233), Expect = 3e-22
 Identities = 56/270 (20%), Positives = 100/270 (37%), Gaps = 64/270 (23%)

Query: 207 TFDTLAMETKKKEEIKK----------------DLKKGYLLYGPPGTGKSTMIAAMANFL 250
           TF  +A   + KEE+ +                 + KG L+ GPPGTGK+ +  A+A   
Sbjct: 10  TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA 69

Query: 251 NYDVYDLELTTVQD------NSELRSL--LIDTSSKSILVIEDIDCSLDLTGQREKKKEK 302
               + +  +   +       S +R +      ++  I+ I++ID    +  QR      
Sbjct: 70  KVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDA---VGRQRG----- 121

Query: 303 DEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPA 362
                            GG  + + TL+ +L  +DG     G   I++  TN  D LDPA
Sbjct: 122 -------------AGLGGGHDEREQTLNQMLVEMDGFEGNEG--IIVIAATNRPDVLDPA 166

Query: 363 LIRRGRMDKHIEMSYCCFEAFKVLAKNYL-------DIDSHELYAVIESMPAETNMTPAD 415
           L+R GR D+ + +        + + K ++       DID+  +             + AD
Sbjct: 167 LLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTP------GFSGAD 220

Query: 416 VA----ENLMPKCDEDDTETCLKNLIEALK 441
           +A    E  +     +     +    +A  
Sbjct: 221 LANLVNEAALFAARGNKRVVSMVEFEKAKD 250

>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 = 91.0 bits (225), Expect = 4e-21
 Identities = 52/282 (18%), Positives = 102/282 (36%), Gaps = 61/282 (21%)

Query: 207 TFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAM--- 246
           T++ +      K E+++ +                  KG L YGPPG GK+ +  A+   
Sbjct: 5   TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE 64

Query: 247 --ANFLNYDVYDLELTTVQDNSELRSLLIDT---SSKSILVIEDIDCSLDLTGQREKKKE 301
             ANF++    +L      ++      + D    ++  +L  +++D      G       
Sbjct: 65  CQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNI---- 120

Query: 302 KDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDP 361
                              G   +   ++ +L  +DG+ +       I+  TN  D +DP
Sbjct: 121 -----------------GDGGGAADRVINQILTEMDGMSTKKN--VFIIGATNRPDIIDP 161

Query: 362 ALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENL 420
           A++R GR+D+ I +     ++   + K  L          +E +   T   + AD+    
Sbjct: 162 AILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLT--- 218

Query: 421 MPKCDEDDTETCLKNLIEALKAAKEEAIKKTEEEARKFSRIE 462
                    E C +    A++ + E  I++  E     S +E
Sbjct: 219 ---------EICQRACKLAIRESIESEIRRERERQTNPSAME 251

>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 = 72.4 bits (177), Expect = 2e-14
 Identities = 33/243 (13%), Positives = 72/243 (29%), Gaps = 55/243 (22%)

Query: 226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIED 285
           K+ +L  GP  +GK+T+ AA+         ++ L   + N EL         + ++V ED
Sbjct: 154 KRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVA----IDQFLVVFED 209

Query: 286 IDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGE 345
           +  +   +      +  +                         L  L +++DG    + E
Sbjct: 210 VKGTGGESRDLPSGQGINN------------------------LDNLRDYLDGSVKVNLE 245

Query: 346 E----------RIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDS 395
           +             + T N   +       + R  K I+                 D   
Sbjct: 246 KKHLNKRTQIFPPGIVTMN---EYSVPKTLQARFVKQIDFRPK-------------DYLK 289

Query: 396 HELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLI-EALKAAKEEAIKKTEEE 454
           H L      +      +   +   L+      +    +++ I E  +   +E      ++
Sbjct: 290 HCLERSEFLLEKRIIQSGIALLLMLIWYRPVAEFAQSIQSRIVEWKERLDKEFSLSVYQK 349

Query: 455 ARK 457
            + 
Sbjct: 350 MKF 352

>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 = 67.7 bits (164), Expect = 3e-13
 Identities = 34/272 (12%), Positives = 80/272 (29%), Gaps = 24/272 (8%)

Query: 207 TFDTLAMETKKKEEIKKDLK--------KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE 258
            F     E +  + +++ ++          +LL G PG+GK+++ +A+      +V  + 
Sbjct: 5   NFTDKQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVI- 63

Query: 259 LTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKE 318
                DN   +    +      L  +D+   +     R  +       ++   +   E  
Sbjct: 64  -----DNDTFKQQHPNFDELVKLYEKDVVKHVTPYSNRMTEAIISRLSDQGYNLV-IEGT 117

Query: 319 DGGSKKSKVTLSGLLNF---IDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEM 375
              +     T + L            A  +    + T    + +        R       
Sbjct: 118 GRTTDVPIQTATMLQAKGYETKMYVMAVPKINSYLGTIERYETMYADDPMTARATPKQAH 177

Query: 376 SYC---CFEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDDTETC 432
                      + L K  L  D          + +          E L     E + +  
Sbjct: 178 DIVVKNLPTNLETLHKTGLFSDIRLYNREGVKLYSSLETPSISPKETLE---KELNRKVS 234

Query: 433 LKNLIEALKAAKEEAIKKTEEEARKFSRIENR 464
            K +   L+  +++ +    +E  +F  I+ +
Sbjct: 235 GKEIQPTLERIEQKMVLNKHQETPEFKAIQQK 266

>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 = 55.4 bits (132), Expect = 3e-09
 Identities = 42/205 (20%), Positives = 79/205 (38%), Gaps = 29/205 (14%)

Query: 219 EEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-----DNSELRSLLI 273
           + I     +G LLYGPPGTGK+ +  A+AN      + +    +      ++        
Sbjct: 31  KAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAF 90

Query: 274 DTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLL 333
           + + K+   I  ID    +  +R                     E    +  +  +S LL
Sbjct: 91  EEAEKNAPAIIFIDELDAIAPKR---------------------EKTHGEVERRIVSQLL 129

Query: 334 NFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCC-FEAFKVLAKNYLD 392
             +DGL   +    I++  TN  + +DPAL R GR D+ +++         ++L  +  +
Sbjct: 130 TLMDGLKQRAH--VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKN 187

Query: 393 IDSHELYAVIESMPAETNMTPADVA 417
           +   +   + +          AD+A
Sbjct: 188 MKLADDVDLEQVANETHGHVGADLA 212

>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 = 53.5 bits (128), Expect = 2e-08
 Identities = 17/159 (10%), Positives = 44/159 (27%), Gaps = 36/159 (22%)

Query: 230 LLYGPPGTGKSTMIAAMANFLNYDV--YDLELTTV------QDNSELRSLLIDTSSKSIL 281
           ++ G   +GK+ ++ A+   L        +             N  +  +        ++
Sbjct: 127 IVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHRVI 186

Query: 282 VIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS 341
           VI+ +                         +      +  S         LL+ I  +  
Sbjct: 187 VIDSLK-----------------------NVIGAAGGNTTSGGISRGAFDLLSDIGAM-- 221

Query: 342 ASGEERIIVFTTN---YVDKLDPALIRRGRMDKHIEMSY 377
           A+    +++ + N     DK+   +    R +    +  
Sbjct: 222 AASRGCVVIASLNPTSNDDKIVELVKEASRSNSTSLVIS 260

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

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]

 Score = 44.4 bits (103), Expect = 1e-05
 Identities = 34/254 (13%), Positives = 81/254 (31%), Gaps = 15/254 (5%)

Query: 205 PATFDTLAMETKKKEEIKKDLKKG-----YLLYGPPGTGKSTMIAAMANFLNYDVYDLEL 259
           P + + L+   +    +K    +       LLYGP GTGK T   A+   +         
Sbjct: 7   PKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLK 66

Query: 260 TTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKED 319
             V+      +  ++ +  S     +I  S      R   +E  ++  +   ++ ++ +D
Sbjct: 67  IDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKD 126

Query: 320 GGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCC 379
           G + + K     ++       +   +  +      Y   +   ++          +   C
Sbjct: 127 GLAHRYKC----VIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQC 182

Query: 380 FEAFKVLAKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDDTETCLKNLIEA 439
                    +             E +  ET     D+ + +    +  +    L  ++E+
Sbjct: 183 LLIRCPAPSDSEISTILSDVVTNERIQLETK----DILKRIAQASN-GNLRVSL-LMLES 236

Query: 440 LKAAKEEAIKKTEE 453
           +    E A+K +  
Sbjct: 237 MALNNELALKSSSP 250

>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 = 43.4 bits (101), Expect = 3e-05
 Identities = 36/223 (16%), Positives = 66/223 (29%), Gaps = 24/223 (10%)

Query: 227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDI 286
              LL GPP +GK+ + A +A   N+                    I +  K I   E  
Sbjct: 41  VSVLLEGPPHSGKTALAAKIAEESNFPFIK----------------ICSPDKMIGFSETA 84

Query: 287 DCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEE 346
            C        +  K +       +     +    G + S + L  LL  +       G +
Sbjct: 85  KCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPP-QGRK 143

Query: 347 RIIVFTTNYVDKLDPALIRRGRMDKHIEMS--YCCFEAFKVLAKNYLDIDSHELYAVIES 404
            +I+ TT+  D L             I +       +  + L     +    E   + + 
Sbjct: 144 LLIIGTTSRKDVLQEME-MLNAFSTTIHVPNIATGEQLLEALELL-GNFKDKERTTIAQQ 201

Query: 405 MPAETNMTPADVAENLMPKCDEDDTETCLKNLIEALKAAKEEA 447
           +  +           L+    + D E     + + L   +EE 
Sbjct: 202 VKGKKVWIGIKKLLMLIEMSLQMDPE---YRVRKFLALLREEG 241

>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 = 43.3 bits (101), Expect = 4e-05
 Identities = 42/258 (16%), Positives = 78/258 (30%), Gaps = 27/258 (10%)

Query: 211 LAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRS 270
           + ++   + E+     K  L+ GP G GK+ +   +A   N     +E T   +   +  
Sbjct: 37  MQLQEPLRHEVTP---KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVG- 92

Query: 271 LLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDE-DKEEKNPIEKKEKEDGGSKKSKVTL 329
                    I  + D         ++      DE DK     I KK +  G     +   
Sbjct: 93  ---KEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDK-----ICKKGEYSGADVSREGVQ 144

Query: 330 SGLLNFIDGLWSASGEERI----IVFTT----NYVDKLDPALIRRGRMDKHIEMSYCCFE 381
             LL  ++G   ++    +    I+F            D     +GR+   +E++     
Sbjct: 145 RDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAA 204

Query: 382 AFKVLAKNYLDIDSHELYAVIESMPAETNMTPA--DVAENLMPKCDEDDTETCLKNLIEA 439
            F    +  L      L    +++ A   +  A    A   + +      E         
Sbjct: 205 DF----ERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARR 260

Query: 440 LKAAKEEAIKKTEEEARK 457
           L    E  + K    A  
Sbjct: 261 LHTVMERLMDKISFSASD 278

>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 = 42.6 bits (99), Expect = 4e-05
 Identities = 18/92 (19%), Positives = 40/92 (43%), Gaps = 9/92 (9%)

Query: 205 PATFDTLAMETKKKEEIK---------KDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVY 255
           P + D    +   K+++           ++    LL GPPG GK+T+   +A+ L  +++
Sbjct: 5   PKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIH 64

Query: 256 DLELTTVQDNSELRSLLIDTSSKSILVIEDID 287
                 +    ++ ++L       +L I++I 
Sbjct: 65  VTSGPVLVKQGDMAAILTSLERGDVLFIDEIH 96

>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 = 41.9 bits (97), Expect = 8e-05
 Identities = 22/94 (23%), Positives = 47/94 (50%), Gaps = 10/94 (10%)

Query: 205 PATFDTLAMETKKKEEIK---------KDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVY 255
           P T D    + + K++++         K+  +  LL+GPPG GK+T+   +A+ L  ++ 
Sbjct: 5   PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLR 64

Query: 256 DLELTTVQDNSELRSLLIDTSSK-SILVIEDIDC 288
                 ++   +L ++L ++  +  IL I++I  
Sbjct: 65  VTSGPAIEKPGDLAAILANSLEEGDILFIDEIHR 98

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.5 bits (93), Expect = 2e-04
 Identities = 21/74 (28%), Positives = 30/74 (40%), Gaps = 4/74 (5%)

Query: 205 PATFDTLAMETKKKEEIKKDLKKG----YLLYGPPGTGKSTMIAAMANFLNYDVYDLELT 260
           P   D +  +      +KK LK       L YGPPGTGK++ I A+   L          
Sbjct: 8   PKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRI 67

Query: 261 TVQDNSELRSLLID 274
              + S+ R + I 
Sbjct: 68  LELNASDERGISIV 81

>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 = 39.0 bits (89), Expect = 8e-04
 Identities = 34/271 (12%), Positives = 66/271 (24%), Gaps = 26/271 (9%)

Query: 202 FEHPATFDTLAMETKKKEEIKKDLK----------KGYLLYGPPGTGKSTMIAAMANFLN 251
           F        L    ++ +++   L               L G PGTGK+  +  +     
Sbjct: 9   FSPSYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYK 68

Query: 252 YDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNP 311
                       +    R+        +  +            +      +   + +   
Sbjct: 69  DKTT--ARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYM 126

Query: 312 IEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDK 371
               +     +     T   L    D L +      I+      ++ LDP+         
Sbjct: 127 FLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYV 186

Query: 372 HIEMSYCCFEAFKVL---AKNYLDIDSHELYAVIESMPAETNMTPADVAENLMPKCDEDD 428
                Y   + F +L   AK  L   S+    +          TP D             
Sbjct: 187 IRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARL----- 241

Query: 429 TETCLKNLIE--ALKAAKEEAIKKTEEEARK 457
                 +++   A  A +        E+ RK
Sbjct: 242 ----AIDILYRSAYAAQQNGRKHIAPEDVRK 268

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} 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: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score = 38.6 bits (89), Expect = 0.001
 Identities = 33/210 (15%), Positives = 68/210 (32%), Gaps = 24/210 (11%)

Query: 205 PATFDTLAMETKKKEEIKKDLKKG-----YLLYGPPGTGKSTMIAAMANFLNYDVYDLEL 259
           P TF  +  +      +   L  G     YL  G  G GK+++   +A  LN +      
Sbjct: 8   PQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETG---- 63

Query: 260 TTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDE-DKEEKNPIEKKEKE 318
            T        +       + + +IE     +D   + + +  +D  D  +  P   + K 
Sbjct: 64  ITATPCGVCDNCREIEQGRFVDLIE-----IDAASRTKVEDTRDLLDNVQYAPARGRFKV 118

Query: 319 ---DGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEM 375
              D     S+ + + LL  ++       E    +  T    KL   ++ R        +
Sbjct: 119 YLIDEVHMLSRHSFNALLKTLEE----PPEHVKFLLATTDPQKLPVTILSRCLQFHLKAL 174

Query: 376 S--YCCFEAFKVLAKNYLDIDSHELYAVIE 403
                  +   +L + ++  +   L  +  
Sbjct: 175 DVEQIRHQLEHILNEEHIAHEPRALQLLAR 204

>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 = 38.2 bits (87), Expect = 0.001
 Identities = 20/117 (17%), Positives = 40/117 (34%), Gaps = 22/117 (18%)

Query: 205 PATFDTLAMETKKKEEIKKDLK---------------------KGYLLYGPPGTGKSTMI 243
           P     +        ++K  L                      +  +LYGPPG GK+T  
Sbjct: 10  PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAA 69

Query: 244 AAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKK 300
             +A  L YD+ +   + V+  + L +  +  +  ++ V+     + +      K  
Sbjct: 70  HLVAQELGYDILEQNASDVRSKTLLNA-GVKNALDNMSVVGYFKHNEEAQNLNGKHF 125

>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 = 38.4 bits (88), Expect = 0.001
 Identities = 12/23 (52%), Positives = 16/23 (69%)

Query: 228 GYLLYGPPGTGKSTMIAAMANFL 250
           G L++G  GTGKST + A+A  L
Sbjct: 30  GVLVFGDRGTGKSTAVRALAALL 52

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]} Length = 283

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]

 Score = 37.4 bits (85), Expect = 0.003
 Identities = 14/50 (28%), Positives = 24/50 (48%)

Query: 219 EEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSEL 268
           E++K       L+ G   TGKS++I    N LN     L+L   ++ + +
Sbjct: 22  EKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYI 71

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 231

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]

 Score = 36.8 bits (84), Expect = 0.003
 Identities = 33/205 (16%), Positives = 64/205 (31%), Gaps = 32/205 (15%)

Query: 205 PATFDTLAMETKKKEEIKKDLKKG----YLLYGPPGTGKSTMIAAMANFLNYDVYDLELT 260
           P   D +  +    + +K  +K G     L  GPPG GK+T   A+A  L  + +     
Sbjct: 20  PQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWR---- 75

Query: 261 TVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDG 320
              +  EL +    +  + I VI +           E  + K         I   E +  
Sbjct: 76  --HNFLELNA----SDERGINVIREKVK--------EFARTKPIGGASFKIIFLDEADAL 121

Query: 321 GSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCF 380
                +     +  F   +          + + NY  K+   +  R  + +   +     
Sbjct: 122 TQDAQQALRRTMEMFSSNVR--------FILSCNYSSKIIEPIQSRCAIFRFRPLRDEDI 173

Query: 381 EA--FKVLAKNYLDIDSHELYAVIE 403
                 +     L++    L A++ 
Sbjct: 174 AKRLRYIAENEGLELTEEGLQAILY 198

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	504
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	100.0
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	100.0
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.97
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.9
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.88
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.86
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.82
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.8
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.73
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.72
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.72
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.69
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.67
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.62
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.61
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.55
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.51
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.5
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.47
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.42
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.42
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.41
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.4
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.36
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.32
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.31
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.24
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.2
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.88
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.85
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.79
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.75
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.15
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.99
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.98
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.95
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	97.95
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.93
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.86
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.85
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.82
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.81
d1tuea_	205	Replication protein E1 helicase domain {Human papi	97.78
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.75
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.75
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.65
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.64
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.54
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.49
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.48
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	97.44
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.44
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.42
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.4
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.37
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.35
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.34
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.3
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.29
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.28
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.25
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.2
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.19
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.17
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.13
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.06
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	96.95
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.9
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.89
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.87
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.86
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.84
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.84
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	96.8
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.64
d1okkd2	207	GTPase domain of the signal recognition particle r	96.61
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.6
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.56
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.54
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.53
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.52
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.52
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.5
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.49
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.48
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.47
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.41
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.37
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.33
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	96.31
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.28
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.27
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.2
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.17
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.14
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.12
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.09
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.09
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	96.08
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	96.04
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.03
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.96
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.94
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	95.94
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.93
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	95.91
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	95.89
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.88
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.87
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	95.85
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.84
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	95.84
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.83
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.78
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.72
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.71
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	95.7
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.69
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.64
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.59
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.59
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	95.56
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.53
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	95.53
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.53
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.48
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	95.43
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.36
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.36
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.34
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.3
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.29
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.23
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.2
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.17
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.16
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.16
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.06
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.95
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.94
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	94.89
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.87
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.82
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.82
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	94.81
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.81
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.77
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.76
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	94.75
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	94.74
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.71
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.7
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.6
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.59
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.41
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.36
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	94.28
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.27
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.21
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.19
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.15
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.02
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.94
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.92
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.89
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.8
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.77
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.73
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	93.65
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.57
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	93.55
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.53
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	93.51
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.42
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	93.4
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.37
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.34
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.29
d2awna2	232	Maltose transport protein MalK, N-terminal domain	93.28
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.27
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.2
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	93.19
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.18
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.16
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	93.08
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.07
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	93.05
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	93.01
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	93.01
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	92.99
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	92.92
d1g2912	240	Maltose transport protein MalK, N-terminal domain	92.91
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	92.87
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	92.86
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	92.84
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.64
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	92.6
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	92.57
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.57
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	92.56
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.39
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	92.36
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.29
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.16
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	91.88
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	91.87
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	91.74
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	91.53
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	91.52
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	91.49
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	91.44
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	91.39
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.27
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.12
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	90.76
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	90.74
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	90.73
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	90.67
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	90.37
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	90.35
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	90.32
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	90.29
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	90.21
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	89.99
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	89.71
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	89.46
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	89.45
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	89.44
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	89.37
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	89.28
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	88.39
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	88.3
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	88.12
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	87.23
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	86.98
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	86.55
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	86.23
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	86.16
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	85.9
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	85.65
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	85.65
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	85.42
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	85.17
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	85.15
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	84.88
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	84.86
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	84.77
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	84.61
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	83.79
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	81.95
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	80.36

>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=1.4e-34  Score=281.57  Aligned_cols=193  Identities=26%  Similarity=0.365  Sum_probs=153.5

Q ss_pred             ccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC------
Q 037859          206 ATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ------  263 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~------  263 (504)
                      -+|+++++.++.|++|.+.+                ++|+|||||||||||++|+++|++++.+++.++++.+.      
T Consensus         9 ~t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~~~g~   88 (256)
T d1lv7a_           9 TTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGV   88 (256)
T ss_dssp             CCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCC
T ss_pred             CCHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhcchhH
Confidence            46788888888887776543                78999999999999999999999999999999998763      


Q ss_pred             ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          264 DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       264 ~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                      +...++++|..+  ..||||||||||.++...+..                     ..+.......+++.||+.||++.+
T Consensus        89 ~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~---------------------~~~~~~~~~~~~~~ll~~~d~~~~  147 (256)
T d1lv7a_          89 GASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAG---------------------LGGGHDEREQTLNQMLVEMDGFEG  147 (256)
T ss_dssp             CHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTT---------------------SCCTTCHHHHHHHHHHHHHHTCCS
T ss_pred             HHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCC---------------------CCCCcHHHHHHHHHHHHHhhCCCC
Confidence            457789999776  478999999999976321111                     112233445688999999999854


Q ss_pred             cCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhh
Q 037859          342 ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENL  420 (504)
Q Consensus       342 ~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l  420 (504)
                        ..++++|+|||+++.|||||+||||||.+|+|+.|+.++|..|++.++.........++..+++.+ |||++||..++
T Consensus       148 --~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adi~~l~  225 (256)
T d1lv7a_         148 --NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLV  225 (256)
T ss_dssp             --SSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHH
T ss_pred             --CCCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccCHHHHHHhCCCCCHHHHHHHH
Confidence              456999999999999999999999999999999999999999999998755433222334455544 89999998665


Q ss_pred             C
Q 037859          421 M  421 (504)
Q Consensus       421 ~  421 (504)
                      .
T Consensus       226 ~  226 (256)
T d1lv7a_         226 N  226 (256)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=6.5e-34  Score=275.52  Aligned_cols=193  Identities=26%  Similarity=0.352  Sum_probs=151.5

Q ss_pred             CccccccccChhHHHHHHHhh----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC-----
Q 037859          205 PATFDTLAMETKKKEEIKKDL----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ-----  263 (504)
Q Consensus       205 p~~f~~~~~~~~~k~~i~~~l----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~-----  263 (504)
                      +.+|+++++.+++|++|.+.+                ++|+|||||||||||++|+++|++++++++.++++.+.     
T Consensus         5 ~~~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g   84 (247)
T d1ixza_           5 KVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVG   84 (247)
T ss_dssp             SCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTT
T ss_pred             CCcHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhcccc
Confidence            357999999999998776543                68999999999999999999999999999999988752     


Q ss_pred             -ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcc
Q 037859          264 -DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLW  340 (504)
Q Consensus       264 -~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~  340 (504)
                       +...++.+|..+  ..||||||||||.++...+..                     ..++.......++.||+.||++.
T Consensus        85 ~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~---------------------~~~~~~~~~~~~~~ll~~~d~~~  143 (247)
T d1ixza_          85 VGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSG---------------------VGGGNDEREQTLNQLLVEMDGFE  143 (247)
T ss_dssp             HHHHHHHHHHHHHTTSSSEEEEEETHHHHHC------------------------------CHHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCC---------------------CCCCcHHHHHHHHHHHHHhhCCC
Confidence             345688888765  479999999999975321111                     11223345668999999999985


Q ss_pred             ccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHh
Q 037859          341 SASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAEN  419 (504)
Q Consensus       341 ~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~  419 (504)
                      .  ...++||+|||+++.|||||+||||||.+|+|+.|+.++|+.|++.|+..........+..+++.+ |||++||..+
T Consensus       144 ~--~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~~~~la~~t~g~s~~di~~l  221 (247)
T d1ixza_         144 K--DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENL  221 (247)
T ss_dssp             T--TCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHH
T ss_pred             C--CCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccCHHHHHHHCCCCCHHHHHHH
Confidence            4  355899999999999999999999999999999999999999999999654332222244455544 9999999865


Q ss_pred             h
Q 037859          420 L  420 (504)
Q Consensus       420 l  420 (504)
                      +
T Consensus       222 v  222 (247)
T d1ixza_         222 L  222 (247)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=7.7e-33  Score=269.93  Aligned_cols=189  Identities=26%  Similarity=0.349  Sum_probs=150.2

Q ss_pred             cccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC------
Q 037859          207 TFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ------  263 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~------  263 (504)
                      +|++|++-+..|++|.+.+                 +||+|||||||||||++++++|++++.+++.++++.+.      
T Consensus         2 ~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g~   81 (258)
T d1e32a2           2 GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE   81 (258)
T ss_dssp             CGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTTH
T ss_pred             ChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhccccccc
Confidence            4777888888887777654                 79999999999999999999999999999999987653      


Q ss_pred             ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          264 DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       264 ~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                      ....++.+|..+  ..||||||||+|.++.   ++.                     .+.+.....+++.+++.+++...
T Consensus        82 ~~~~l~~~f~~A~~~~p~il~iDeid~l~~---~r~---------------------~~~~~~~~~~~~~~~~~~~~~~~  137 (258)
T d1e32a2          82 SESNLRKAFEEAEKNAPAIIFIDELDAIAP---KRE---------------------KTHGEVERRIVSQLLTLMDGLKQ  137 (258)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEESSGGGTCC---HHH---------------------HCCCTTHHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHHhcCCeEEEehhhhhhcc---CCC---------------------CCCCchHHHHHHHhccccccccc
Confidence            246678888765  5899999999999863   221                     11223345678889999998844


Q ss_pred             cCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccCC-CCCHHHHHHhh
Q 037859          342 ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAET-NMTPADVAENL  420 (504)
Q Consensus       342 ~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~~-~~s~a~i~~~l  420 (504)
                        ..+++||+|||+++.||||++||||||.+|+|++|+.++|+.|++.++..........+..+++.+ |||++||..++
T Consensus       138 --~~~vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adl~~lv  215 (258)
T d1e32a2         138 --RAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALC  215 (258)
T ss_dssp             --SSCEEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCCHHHHHHHCTTCCHHHHHHHH
T ss_pred             --cCCccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccchhhhhhcccCCCHHHHHHHH
Confidence              456899999999999999999999999999999999999999999999654322222244555544 99999998654


Q ss_pred             C
Q 037859          421 M  421 (504)
Q Consensus       421 ~  421 (504)
                      .
T Consensus       216 ~  216 (258)
T d1e32a2         216 S  216 (258)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.97  E-value=2.2e-32  Score=267.63  Aligned_cols=191  Identities=22%  Similarity=0.355  Sum_probs=141.1

Q ss_pred             cccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc------C
Q 037859          207 TFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV------Q  263 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~------~  263 (504)
                      +|+++++.++.|++|.+.+                 ++|+|||||||||||++|+++|++++.+++.++++.+      .
T Consensus         5 ~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~~~   84 (265)
T d1r7ra3           5 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGE   84 (265)
T ss_dssp             SCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCTTT
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccccc
Confidence            5677777666666666554                 6899999999999999999999999999999998765      2


Q ss_pred             ChHHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccc
Q 037859          264 DNSELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWS  341 (504)
Q Consensus       264 ~~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~  341 (504)
                      ....++.+|..+  ..||||+|||+|.++.   .+..                  ...........+++.||+.||++..
T Consensus        85 ~~~~l~~~f~~A~~~~p~il~ideid~l~~---~~~~------------------~~~~~~~~~~~~~~~ll~~l~~~~~  143 (265)
T d1r7ra3          85 SEANVREIFDKARQAAPCVLFFDELDSIAK---ARGG------------------NIGDGGGAADRVINQILTEMDGMST  143 (265)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEESSGGGTCC---HHHH------------------CCCTTHHHHHHHHHHHHHTCC----
T ss_pred             hHHHHHHHHHHHHhcCCcceeHHhhhhccc---cCCC------------------cCCCCcHHHHHHHHHHHHHhhCcCC
Confidence            346678888665  5799999999999863   2110                  0011123345688999999999865


Q ss_pred             cCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCcchHHHHhcCccC-CCCCHHHHHHhh
Q 037859          342 ASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSHELYAVIESMPAE-TNMTPADVAENL  420 (504)
Q Consensus       342 ~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~~~~~~i~~l~~~-~~~s~a~i~~~l  420 (504)
                      .  .+++||+|||+++.|||||+||||||.+|+|++|+.++|..|++.++..........++.++.. .|||++||..++
T Consensus       144 ~--~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~l~~la~~t~g~s~~di~~lv  221 (265)
T d1r7ra3         144 K--KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEIC  221 (265)
T ss_dssp             ----CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCCCHHHHHHHCSSCCHHHHHHH
T ss_pred             C--CCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhhHHHHHhcCCCCCHHHHHHHH
Confidence            3  4589999999999999999999999999999999999999999999864321111112333433 489999997653

>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=2.4e-26  Score=228.19  Aligned_cols=157  Identities=12%  Similarity=0.092  Sum_probs=121.3

Q ss_pred             ecCCCccccccccChhHHHHHHHhhcccccc-cCCCCCcHHHHHHHHHHhcC--CcEEEEeccccC------ChHHHHHH
Q 037859          201 FFEHPATFDTLAMETKKKEEIKKDLKKGYLL-YGPPGTGKSTMIAAMANFLN--YDVYDLELTTVQ------DNSELRSL  271 (504)
Q Consensus       201 ~~~~p~~f~~~~~~~~~k~~i~~~l~rg~LL-~GPpGtGKTsla~aiA~~l~--~~i~~l~~~~~~------~~~~l~~l  271 (504)
                      +...|..|+.++...          ++|+|| |||||||||++|+|+|.+++  .+++.++.+.+.      ...+++.+
T Consensus       107 ~~~~~~~~~~~~~~~----------~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~  176 (321)
T d1w44a_         107 VGCSPVVAEFGGHRY----------ASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDI  176 (321)
T ss_dssp             CSBCCEEEEETTEEE----------ESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHH
T ss_pred             cccchHHHHHhhccc----------CCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHH
Confidence            344667777665544          788665 89999999999999999986  678889888762      45789999


Q ss_pred             HHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEE
Q 037859          272 LIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVF  351 (504)
Q Consensus       272 ~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~  351 (504)
                      |..+..+|||||||||.+.   +.|.                    ..++.....+++++||..|||+.+.  .+++||+
T Consensus       177 f~~a~~~~ilf~DEid~~~---~~r~--------------------~~~~~~~~~r~v~~lL~e~dg~~~~--~~v~via  231 (321)
T d1w44a_         177 ARAMLQHRVIVIDSLKNVI---GAAG--------------------GNTTSGGISRGAFDLLSDIGAMAAS--RGCVVIA  231 (321)
T ss_dssp             HHHHHHCSEEEEECCTTTC----------------------------------CCHHHHHHHHHHHHHHHH--HTCEEEE
T ss_pred             HHHHhhccEEEeehhhhhc---cccc--------------------cCCCCCcchhhhhhhhhhccccccC--CCeEEEE
Confidence            9999889999999999975   3331                    1122233456999999999999654  4599999


Q ss_pred             ecCCC---CCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          352 TTNYV---DKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       352 tTN~~---e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      |||+.   +.||+++.||||||++|.+++|+.+.+.+|++.+..
T Consensus       232 atN~~~~~~~i~~~~~r~~Rf~~~v~v~~pd~~~r~~il~~~~~  275 (321)
T d1w44a_         232 SLNPTSNDDKIVELVKEASRSNSTSLVISTDVDGEWQVLTRTGE  275 (321)
T ss_dssp             ECCCCCCCHHHHHHHHHHHHHSCSEEEEECSSTTEEEEEEECBT
T ss_pred             eCCCcccccchhhhhhccCcccceeecCCCChHHHHHHHHHhcc
Confidence            99963   346777889999999999999999999988877653

>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=99.88  E-value=3.5e-23  Score=199.52  Aligned_cols=137  Identities=23%  Similarity=0.260  Sum_probs=102.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC---C----hHHHHHHHHhc--cCCeEEEEecccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ---D----NSELRSLLIDT--SSKSILVIEDIDCSLDLTGQR  296 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~---~----~~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~  296 (504)
                      ++|+|||||||||||++|++||++++.+++.+++++..   .    ...++.+|..+  .+||||||||||.+++   .+
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~~~~~i~~if~~A~~~~p~il~iDEid~l~~---~~  116 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLD---YV  116 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTT---CB
T ss_pred             CeEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccchhhhhhhhhhhhhhcccceeehhhhhhHhh---hc
Confidence            57899999999999999999999999999999876531   1    24577888776  4689999999999753   11


Q ss_pred             cccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEec
Q 037859          297 EKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMS  376 (504)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~  376 (504)
                                            ..+.......++.|+..+|+... .+..++||+|||+++.||++.++ +||+.+|++|
T Consensus       117 ----------------------~~~~~~~~~~~~~ll~~l~~~~~-~~~~v~vi~tTn~~~~ld~~~~~-~rF~~~i~~P  172 (246)
T d1d2na_         117 ----------------------PIGPRFSNLVLQALLVLLKKAPP-QGRKLLIIGTTSRKDVLQEMEML-NAFSTTIHVP  172 (246)
T ss_dssp             ----------------------TTTTBCCHHHHHHHHHHTTCCCS-TTCEEEEEEEESCHHHHHHTTCT-TTSSEEEECC
T ss_pred             ----------------------ccccchhHHHHHHHHHHhcCCCc-cccceeeeeccCChhhccchhhc-CccceEEecC
Confidence                                  11223345678899999998854 34567889999999999876554 5999999986


Q ss_pred             CC-CHHHHHHHHHH
Q 037859          377 YC-CFEAFKVLAKN  389 (504)
Q Consensus       377 ~p-~~e~~~~i~~~  389 (504)
                      .+ ..+++..+++.
T Consensus       173 ~~~~r~~il~~l~~  186 (246)
T d1d2na_         173 NIATGEQLLEALEL  186 (246)
T ss_dssp             CEEEHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHh
Confidence            54 34444444443

>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=99.86  E-value=4e-21  Score=183.23  Aligned_cols=158  Identities=19%  Similarity=0.252  Sum_probs=125.5

Q ss_pred             cCCCccccccccChhHHHHHHHhh---------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHH
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDL---------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLL  272 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l---------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~  272 (504)
                      +-+|.+|++++++++.++.+...+         ..++|||||||||||++|+++|++++++++.++.........+...+
T Consensus         2 ~~RP~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~~~~~~~~~   81 (238)
T d1in4a2           2 FLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAIL   81 (238)
T ss_dssp             TTSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccccHHHHHHHH
Confidence            357999999999999999888776         35699999999999999999999999999999988887778888888


Q ss_pred             HhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCc-------------
Q 037859          273 IDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGL-------------  339 (504)
Q Consensus       273 ~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~-------------  339 (504)
                      .....+++++|||+|.+..   ..                                ...++..++..             
T Consensus        82 ~~~~~~~~~~ide~~~~~~---~~--------------------------------~~~l~~~~~~~~~~~~~~~~~~~~  126 (238)
T d1in4a2          82 TSLERGDVLFIDEIHRLNK---AV--------------------------------EELLYSAIEDFQIDIMIGKGPSAK  126 (238)
T ss_dssp             HHCCTTCEEEEETGGGCCH---HH--------------------------------HHHHHHHHHTSCCCC---------
T ss_pred             HhhccCCchHHHHHHHhhh---HH--------------------------------HhhcccceeeeeeeeeecCccccc
Confidence            8888899999999998621   00                                01111111000             


Q ss_pred             -cccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcCCc
Q 037859          340 -WSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDIDSH  396 (504)
Q Consensus       340 -~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~~~  396 (504)
                       -......+++|++||++..+++++++  ||+..+.++.|+.+++..+++.+......
T Consensus       127 ~~~~~~~~~~~I~at~~~~~~~~~~~~--r~~~~~~~~~~~~~~~~~~l~~~~~~~~~  182 (238)
T d1in4a2         127 SIRIDIQPFTLVGATTRSGLLSSPLRS--RFGIILELDFYTVKELKEIIKRAASLMDV  182 (238)
T ss_dssp             ------CCCEEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTC
T ss_pred             ccccCCCCeEEEEecCCCcccccccee--eeeEEEEecCCCHHHHHHHHHHhhhhccc
Confidence             00112357899999999999999999  99999999999999999999888755443

>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=99.82  E-value=3e-20  Score=184.72  Aligned_cols=156  Identities=19%  Similarity=0.280  Sum_probs=117.2

Q ss_pred             cccChhHHHHHHHhh------------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC--------C
Q 037859          211 LAMETKKKEEIKKDL------------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ--------D  264 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l------------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~--------~  264 (504)
                      |+++++.|+.|...+                  ++|+|||||||||||+||++||+.++.+++.++++.+.        .
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~~   95 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEV   95 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGST
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeeec
Confidence            578888887775433                  68899999999999999999999999999999998763        2


Q ss_pred             hHHHHHHHHhcc-------CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhc
Q 037859          265 NSELRSLLIDTS-------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID  337 (504)
Q Consensus       265 ~~~l~~l~~~~~-------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD  337 (504)
                      ...++.+|..+.       +||||||||||.+.+...                       ...........++.||..+|
T Consensus        96 ~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~-----------------------~~~~~~~~~gv~~~LL~~~d  152 (309)
T d1ofha_          96 DSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGE-----------------------YSGADVSREGVQRDLLPLVE  152 (309)
T ss_dssp             THHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSS-----------------------CCSSHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhhcccccccCCceEEehhhhhhhhhcc-----------------------CcccchhhhHHHHHhhHHhc
Confidence            355777777763       489999999999743111                       11112223447788999999


Q ss_pred             CccccCC------CceEEEEe----cCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          338 GLWSASG------EERIIVFT----TNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       338 g~~~~~~------~~~ivI~t----TN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      |.....+      ..+++|+|    +|.+..++|++++  |||.++.++.|+.+++++|+..+.
T Consensus       153 g~~~~~~~~~i~~s~ilfi~~ga~~~~~~~~~~p~l~~--R~~~~i~~~~~~~~~~~~Il~~~~  214 (309)
T d1ofha_         153 GSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQG--RLPIRVELTALSAADFERILTEPH  214 (309)
T ss_dssp             CCEEEETTEEEECTTCEEEEEECCSSSCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHSST
T ss_pred             CCEEecCCeEEEccceeEEeccchhhcCcccchhhhhh--hhheeeeccCCCHHHHHHHHHHHH
Confidence            8542222      12445655    5677888888886  999999999999999999987664

>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=99.80  E-value=4.8e-19  Score=168.85  Aligned_cols=153  Identities=18%  Similarity=0.267  Sum_probs=115.9

Q ss_pred             CCccccccccChhHHHHHHHhh---------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHh
Q 037859          204 HPATFDTLAMETKKKEEIKKDL---------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLID  274 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l---------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~  274 (504)
                      +|.+|++++++++.++.+...+         +.++|||||||||||++|+++|+++++++..++.+...........+..
T Consensus         4 RP~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (239)
T d1ixsb2           4 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAILAN   83 (239)
T ss_dssp             CCCSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSHHHHHHHHHT
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccchhhHHHHHh
Confidence            6999999999999998887666         4679999999999999999999999999999998887665555544444


Q ss_pred             c-cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcC-----c---------
Q 037859          275 T-SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDG-----L---------  339 (504)
Q Consensus       275 ~-~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg-----~---------  339 (504)
                      . ..++|++|||+|.+..    .                               ....++..++.     .         
T Consensus        84 ~~~~~~i~~iDe~~~~~~----~-------------------------------~~~~l~~~~e~~~~~~~~~~~~~~~~  128 (239)
T d1ixsb2          84 SLEEGDILFIDEIHRLSR----Q-------------------------------AEEHLYPAMEDFVMDIVIGQGPAART  128 (239)
T ss_dssp             TCCTTCEEEEETGGGCCH----H-------------------------------HHHHHHHHHHHSEEEEECSCTTCCCE
T ss_pred             hccCCCeeeeecccccch----h-------------------------------HHHhhhhhhhhhhhhhhhccchhhhh
Confidence            3 3578999999998521    0                               11112221110     0         


Q ss_pred             cccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          340 WSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       340 ~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      ........++|++||++...+++.+|  |+...+.+..|+.+++..++...+..
T Consensus       129 ~~~~~~~~~~i~~~~~~~~~~~~~l~--~~~~~~~~~~~~~~~~~~i~~~~~~~  180 (239)
T d1ixsb2         129 IRLELPRFTLIGATTRPGLITAPLLS--RFGIVEHLEYYTPEELAQGVMRDARL  180 (239)
T ss_dssp             EEEECCCCEEEEEESCCSSCSCGGGG--GCSEEEECCCCCHHHHHHHHHHHHGG
T ss_pred             cccCCCCEEEEeeccCcccccchhhc--ccceeeEeeccChhhhhHHHHHHHHH
Confidence            00112346788999999999999999  77789999999999999998877643

>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=99.73  E-value=2.2e-17  Score=157.97  Aligned_cols=150  Identities=18%  Similarity=0.292  Sum_probs=109.5

Q ss_pred             CCCccccccccChhHHHHHHHhh---------------------cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccc
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL---------------------KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTT  261 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l---------------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  261 (504)
                      ..|.+|++++++++.+++|.+.+                     .+++|||||||||||++|+++|++++++++.++.+.
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            46999999999999999988765                     246999999999999999999999999999999988


Q ss_pred             cCChHHHHHHHHhc--------------------cCCeEEEEecccccccccccccccccccccccccCcccccccccCC
Q 037859          262 VQDNSELRSLLIDT--------------------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGG  321 (504)
Q Consensus       262 ~~~~~~l~~l~~~~--------------------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (504)
                      ..+...+...+...                    ....++++||+|.+..                              
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~------------------------------  137 (253)
T d1sxja2          88 VRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSG------------------------------  137 (253)
T ss_dssp             CCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCT------------------------------
T ss_pred             chhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeecccccc------------------------------
Confidence            87766665543221                    2467999999998631                              


Q ss_pred             CcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          322 SKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       322 ~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                        .....+..++......    ...+++++++++...+++ + |  |+...|+|+.|+.++++.+++.++.
T Consensus       138 --~~~~~~~~~~~~~~~~----~~~ii~i~~~~~~~~~~~-l-~--~~~~~i~f~~~~~~~i~~~l~~i~~  198 (253)
T d1sxja2         138 --GDRGGVGQLAQFCRKT----STPLILICNERNLPKMRP-F-D--RVCLDIQFRRPDANSIKSRLMTIAI  198 (253)
T ss_dssp             --TSTTHHHHHHHHHHHC----SSCEEEEESCTTSSTTGG-G-T--TTSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             --chhhhhHHHhhhhccc----cccccccccccccccccc-c-c--ceeeeeeccccchhHHHHHHHHHHH
Confidence              0112233344433221    223555555566666654 4 4  4558999999999999999988763

>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=99.72  E-value=2.5e-17  Score=157.30  Aligned_cols=147  Identities=19%  Similarity=0.330  Sum_probs=118.4

Q ss_pred             CCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCC------------------------cE
Q 037859          204 HPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNY------------------------DV  254 (504)
Q Consensus       204 ~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~------------------------~i  254 (504)
                      +|.+|++++++++.++.+...+     +.++|||||||||||++|+++|+.++.                        ++
T Consensus         7 rP~~~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~   86 (239)
T d1njfa_           7 RPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDL   86 (239)
T ss_dssp             CCSSGGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTE
T ss_pred             CCCCHHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeE
Confidence            6899999999999999988887     566999999999999999999998743                        36


Q ss_pred             EEEeccccCChHHHHHHHHhcc------CCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhH
Q 037859          255 YDLELTTVQDNSELRSLLIDTS------SKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVT  328 (504)
Q Consensus       255 ~~l~~~~~~~~~~l~~l~~~~~------~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  328 (504)
                      +.++.......+.++.++....      ...|++|||+|.+                                   +...
T Consensus        87 ~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l-----------------------------------~~~~  131 (239)
T d1njfa_          87 IEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHML-----------------------------------SRHS  131 (239)
T ss_dssp             EEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGS-----------------------------------CHHH
T ss_pred             EEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccC-----------------------------------CHHH
Confidence            6777665555567777776652      3469999999986                                   1234


Q ss_pred             HHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          329 LSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       329 ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .+.||..|+..    +...++|++||.++.+.+++.+  |+ ..+.|+.|+.++.+.++.+...
T Consensus       132 q~~Llk~lE~~----~~~~~~il~tn~~~~i~~~i~S--Rc-~~i~~~~~~~~~i~~~l~~i~~  188 (239)
T d1njfa_         132 FNALLKTLEEP----PEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILN  188 (239)
T ss_dssp             HHHHHHHHHSC----CTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC----CCCeEEEEEcCCccccChhHhh--hh-cccccccCcHHHhhhHHHHHHh
Confidence            56788888753    3457899999999999999999  88 6899999999998887776653

>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=99.72  E-value=1.1e-17  Score=158.46  Aligned_cols=151  Identities=17%  Similarity=0.220  Sum_probs=115.6

Q ss_pred             cCCCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhcC-----CcEEEEeccccCChHHHHHHH
Q 037859          202 FEHPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLN-----YDVYDLELTTVQDNSELRSLL  272 (504)
Q Consensus       202 ~~~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~-----~~i~~l~~~~~~~~~~l~~l~  272 (504)
                      -..|.+|++++++++.++.+...+    ...+|||||||||||++|+++|++++     .+++.++++...+...++..+
T Consensus        17 ky~P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~~~~~~~   96 (231)
T d1iqpa2          17 KYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKV   96 (231)
T ss_dssp             HTCCCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHH
T ss_pred             HhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccchhHHHHHH
Confidence            345899999999999999999888    34599999999999999999999874     467788876643322233332


Q ss_pred             Hh--------ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCC
Q 037859          273 ID--------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG  344 (504)
Q Consensus       273 ~~--------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~  344 (504)
                      ..        ...+.|++|||+|.+.                                   ......|+..++..    .
T Consensus        97 ~~~~~~~~~~~~~~~iilide~d~~~-----------------------------------~~~~~~ll~~l~~~----~  137 (231)
T d1iqpa2          97 KEFARTKPIGGASFKIIFLDEADALT-----------------------------------QDAQQALRRTMEMF----S  137 (231)
T ss_dssp             HHHHHSCCGGGCSCEEEEEETGGGSC-----------------------------------HHHHHHHHHHHHHT----T
T ss_pred             HHHHhhhhccCCCceEEeehhhhhcc-----------------------------------hhHHHHHhhhcccC----C
Confidence            22        1367899999999853                                   11334566666532    3


Q ss_pred             CceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCcC
Q 037859          345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDID  394 (504)
Q Consensus       345 ~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~~  394 (504)
                      ...++|++||+...++++|.+  |+ ..+.++.|+.++...++++.+...
T Consensus       138 ~~~~~i~~~n~~~~i~~~l~s--R~-~~i~~~~~~~~~~~~~l~~~~~~e  184 (231)
T d1iqpa2         138 SNVRFILSCNYSSKIIEPIQS--RC-AIFRFRPLRDEDIAKRLRYIAENE  184 (231)
T ss_dssp             TTEEEEEEESCGGGSCHHHHH--TE-EEEECCCCCHHHHHHHHHHHHHTT
T ss_pred             cceEEEeccCChhhchHhHhC--cc-ccccccccchhhHHHHHHHHHHHh
Confidence            447899999999999999999  98 579999999999999998887543

>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=99.69  E-value=1.7e-16  Score=149.57  Aligned_cols=148  Identities=14%  Similarity=0.182  Sum_probs=116.2

Q ss_pred             CCCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhcCC-----cEEEEeccccCChHHHHHHHH
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLNY-----DVYDLELTTVQDNSELRSLLI  273 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~~-----~i~~l~~~~~~~~~~l~~l~~  273 (504)
                      ..|+.|++++++++.++.+...+    ...+|||||||||||++|+++|++++.     +++.++.+...+...+...+.
T Consensus         9 yrP~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~   88 (224)
T d1sxjb2           9 YRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIK   88 (224)
T ss_dssp             TCCSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHH
T ss_pred             hCCCCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHH
Confidence            57999999999999999999888    235899999999999999999998864     488888887766555544433


Q ss_pred             h---c------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCC
Q 037859          274 D---T------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASG  344 (504)
Q Consensus       274 ~---~------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~  344 (504)
                      .   .      ....|++|||+|.+.                                   ....+.|+..++..    .
T Consensus        89 ~~~~~~~~~~~~~~kviiiDe~d~~~-----------------------------------~~~~~~ll~~~e~~----~  129 (224)
T d1sxjb2          89 HFAQKKLHLPPGKHKIVILDEADSMT-----------------------------------AGAQQALRRTMELY----S  129 (224)
T ss_dssp             HHHHBCCCCCTTCCEEEEEESGGGSC-----------------------------------HHHHHTTHHHHHHT----T
T ss_pred             HHHHhhccCCCcceEEEEEecccccc-----------------------------------hhHHHHHhhhcccc----c
Confidence            2   1      245699999999862                                   12345566666543    3


Q ss_pred             CceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          345 EERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       345 ~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      ...+++++||....+.++|++  |+ ..|.|+.|+.++...++...+.
T Consensus       130 ~~~~~i~~~~~~~~i~~~l~s--r~-~~i~~~~~~~~~i~~~l~~i~~  174 (224)
T d1sxjb2         130 NSTRFAFACNQSNKIIEPLQS--QC-AILRYSKLSDEDVLKRLLQIIK  174 (224)
T ss_dssp             TTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHH
T ss_pred             cceeeeeccCchhhhhhHHHH--HH-HHhhhcccchhhhHHHHHHHHH
Confidence            457889999999999999999  88 5799999999999988887763

>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=99.67  E-value=2.2e-16  Score=148.74  Aligned_cols=149  Identities=23%  Similarity=0.326  Sum_probs=113.5

Q ss_pred             CCCccccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhcCC-----cEEEEeccccCChHHHHHHHH
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLNY-----DVYDLELTTVQDNSELRSLLI  273 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~~-----~i~~l~~~~~~~~~~l~~l~~  273 (504)
                      ..|++|++++++++.++.+...+    ...+|||||||||||++|+++|++++.     .++.++.+...+.......+.
T Consensus         8 yrP~~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~   87 (227)
T d1sxjc2           8 YRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIK   87 (227)
T ss_dssp             TCCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHH
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchh
Confidence            36999999999999999998888    224899999999999999999998753     355666655444333322222


Q ss_pred             hc--------cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCC
Q 037859          274 DT--------SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGE  345 (504)
Q Consensus       274 ~~--------~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~  345 (504)
                      ..        ....|++|||+|.+.                                   ....+.|+..|+..    ..
T Consensus        88 ~~~~~~~~~~~~~kiiiiDe~d~~~-----------------------------------~~~~~~Ll~~le~~----~~  128 (227)
T d1sxjc2          88 DFASTRQIFSKGFKLIILDEADAMT-----------------------------------NAAQNALRRVIERY----TK  128 (227)
T ss_dssp             HHHHBCCSSSCSCEEEEETTGGGSC-----------------------------------HHHHHHHHHHHHHT----TT
T ss_pred             hccccccccCCCeEEEEEeccccch-----------------------------------hhHHHHHHHHhhhc----cc
Confidence            11        234699999999852                                   22456778777754    34


Q ss_pred             ceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcCc
Q 037859          346 ERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLDI  393 (504)
Q Consensus       346 ~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~~  393 (504)
                      ..+++++||.+..+++++++  |+ ..+.|..|+.++...++.+.+..
T Consensus       129 ~~~~~~~~~~~~~i~~~i~s--r~-~~i~~~~~~~~~i~~~l~~I~~~  173 (227)
T d1sxjc2         129 NTRFCVLANYAHKLTPALLS--QC-TRFRFQPLPQEAIERRIANVLVH  173 (227)
T ss_dssp             TEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHT
T ss_pred             ceeeccccCcHHHhHHHHHH--HH-hhhcccccccccccccccccccc
Confidence            57889999999999999999  88 68999999999999988877643

>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=8e-16  Score=146.76  Aligned_cols=147  Identities=14%  Similarity=0.196  Sum_probs=102.8

Q ss_pred             CCCccccccccChhHHHHHHHhh-----cccccccCCCCCcHHHHHHHHHHhcCCc------------------------
Q 037859          203 EHPATFDTLAMETKKKEEIKKDL-----KKGYLLYGPPGTGKSTMIAAMANFLNYD------------------------  253 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l-----~rg~LL~GPpGtGKTsla~aiA~~l~~~------------------------  253 (504)
                      ..|.+|++++++++.++.+...+     ..++|||||||||||++|+++|+++..+                        
T Consensus         5 y~P~~~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (252)
T d1sxje2           5 YRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNV   84 (252)
T ss_dssp             TCCCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CC
T ss_pred             cCCCCHHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhh
Confidence            35899999999999999998877     3458999999999999999999986211                        


Q ss_pred             -----EEEEeccccC--ChHHHHHHHHh----------------ccCCeEEEEecccccccccccccccccccccccccC
Q 037859          254 -----VYDLELTTVQ--DNSELRSLLID----------------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKN  310 (504)
Q Consensus       254 -----i~~l~~~~~~--~~~~l~~l~~~----------------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~  310 (504)
                           ...+......  ...........                .....|++|||+|.+.                    
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~--------------------  144 (252)
T d1sxje2          85 VSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLT--------------------  144 (252)
T ss_dssp             EECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSC--------------------
T ss_pred             ccCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccc--------------------
Confidence                 1111111111  11111111111                1234699999999852                    


Q ss_pred             cccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHh
Q 037859          311 PIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNY  390 (504)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~  390 (504)
                                     ......|+..++..    ...+.+|+|||+++.++++|++  |+ .+|+|+.|+.++...+++..
T Consensus       145 ---------------~~~~~~l~~~~e~~----~~~~~~Il~tn~~~~i~~~l~s--R~-~~i~~~~~~~~~~~~~l~~i  202 (252)
T d1sxje2         145 ---------------KDAQAALRRTMEKY----SKNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPAPSDSEISTILSDV  202 (252)
T ss_dssp             ---------------HHHHHHHHHHHHHS----TTTEEEEEEESCSCSSCHHHHT--TS-EEEECCCCCHHHHHHHHHHH
T ss_pred             ---------------cccchhhhcccccc----cccccceeeeccccchhhhhhc--ch-heeeecccchhhHHHHHHHH
Confidence                           12345566666533    3457789999999999999998  98 68999999999999988776


Q ss_pred             c
Q 037859          391 L  391 (504)
Q Consensus       391 l  391 (504)
                      +
T Consensus       203 ~  203 (252)
T d1sxje2         203 V  203 (252)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=99.61  E-value=2.7e-15  Score=141.70  Aligned_cols=148  Identities=20%  Similarity=0.284  Sum_probs=109.3

Q ss_pred             CCCccccccccChhHHHHHHHhhc----ccccccCCCCCcHHHHHHHHHHhc------CCcEEEEeccccCChHHHHHHH
Q 037859          203 EHPATFDTLAMETKKKEEIKKDLK----KGYLLYGPPGTGKSTMIAAMANFL------NYDVYDLELTTVQDNSELRSLL  272 (504)
Q Consensus       203 ~~p~~f~~~~~~~~~k~~i~~~l~----rg~LL~GPpGtGKTsla~aiA~~l------~~~i~~l~~~~~~~~~~l~~l~  272 (504)
                      ..|.+|++++++++.++.+...+.    ..+|||||||||||++++++|+++      ....+.++.+...........+
T Consensus         6 y~P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (237)
T d1sxjd2           6 YRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKV   85 (237)
T ss_dssp             TCCSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHH
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHH
Confidence            469999999999999999998882    348999999999999999999986      5667777766654433222111


Q ss_pred             Hh------------------ccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhh
Q 037859          273 ID------------------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLN  334 (504)
Q Consensus       273 ~~------------------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~  334 (504)
                      ..                  .....|+||||+|.+..                                   ...+.++.
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~-----------------------------------~~~~~l~~  130 (237)
T d1sxjd2          86 KNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTA-----------------------------------DAQSALRR  130 (237)
T ss_dssp             HHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCH-----------------------------------HHHHHHHH
T ss_pred             HHHhhhhhhhhhHHHHhhccccCceEEEEecccccCH-----------------------------------HHHHHHhh
Confidence            11                  11345999999998621                                   12333444


Q ss_pred             hhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhcC
Q 037859          335 FIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       335 ~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .++-.    ....++|+++|....+.+++.+  |+ .+|.|+.|+.++...+++..+.
T Consensus       131 ~~~~~----~~~~~~i~~~~~~~~~~~~l~s--r~-~~i~f~~~~~~~~~~~L~~i~~  181 (237)
T d1sxjd2         131 TMETY----SGVTRFCLICNYVTRIIDPLAS--QC-SKFRFKALDASNAIDRLRFISE  181 (237)
T ss_dssp             HHHHT----TTTEEEEEEESCGGGSCHHHHH--HS-EEEECCCCCHHHHHHHHHHHHH
T ss_pred             ccccc----cccccccccccccccccccccc--hh-hhhccccccccccchhhhhhhh
Confidence            44322    2346788899999999999999  88 6899999999999998887753

>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=99.55  E-value=2.3e-15  Score=151.74  Aligned_cols=128  Identities=20%  Similarity=0.189  Sum_probs=89.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCeEEEEeccccccccccccccccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDED  305 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~  305 (504)
                      ++++|||||||||||++|+++|++++.+++.++++...+..    .+.....+.+.++||++........          
T Consensus       154 ~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s~~rs~~----~l~~~~~~~~~l~d~~~~~~~~~~~----------  219 (362)
T d1svma_         154 KRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNF----ELGVAIDQFLVVFEDVKGTGGESRD----------  219 (362)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHH----HHGGGTTCSCEEETTCCCSTTTTTT----------
T ss_pred             cCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECcchhhHH----HHHhHHHHHHHHHHHHHHhhhhccC----------
Confidence            67899999999999999999999999999999887654322    2344456778889999875321110          


Q ss_pred             ccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCc----------eEEEEecCCCCCCChhhhcCCCceeEEEe
Q 037859          306 KEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEE----------RIIVFTTNYVDKLDPALIRRGRMDKHIEM  375 (504)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~----------~ivI~tTN~~e~Ld~ALlRpGR~d~~I~~  375 (504)
                                    .....--..+..|.+.+||....+.+.          ..+|+|||+   ++++++||||||+.|.+
T Consensus       220 --------------~~~~~~~DeiD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~---~~~~~~r~~Rf~~~i~~  282 (362)
T d1svma_         220 --------------LPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNE---YSVPKTLQARFVKQIDF  282 (362)
T ss_dssp             --------------CCCCSHHHHHHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECS---CCCCHHHHTTEEEEEEC
T ss_pred             --------------CCCeEEEehHhhcccccCCcchhhhhhhhhchhhhccCCceeeccc---ccccccccccCceEEee
Confidence                          011112233456677777753221111          248899995   57788899999999999


Q ss_pred             cCCCHHHHH
Q 037859          376 SYCCFEAFK  384 (504)
Q Consensus       376 ~~p~~e~~~  384 (504)
                      ..|....+.
T Consensus       283 ~~~~~~~~~  291 (362)
T d1svma_         283 RPKDYLKHC  291 (362)
T ss_dssp             CCCHHHHHH
T ss_pred             cCCCcHHHH
Confidence            999776654

>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=99.51  E-value=1.5e-13  Score=127.79  Aligned_cols=124  Identities=15%  Similarity=0.169  Sum_probs=95.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcC------------------------CcEEEEecccc---CChHHHHHHHHhc---
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLN------------------------YDVYDLELTTV---QDNSELRSLLIDT---  275 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~------------------------~~i~~l~~~~~---~~~~~l~~l~~~~---  275 (504)
                      +.++||+||||+|||++|+++|+.+.                        .+++.+....-   .....++.+....   
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~ir~l~~~~~~~  103 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEH  103 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTSC
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcccccccchhhHHhhhhhhc
Confidence            67799999999999999999999762                        23444433221   1335566665543   


Q ss_pred             ---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEe
Q 037859          276 ---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFT  352 (504)
Q Consensus       276 ---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~t  352 (504)
                         ...-|++|||+|.+                                   +....+.||..|+..    +...++|++
T Consensus       104 ~~~~~~kviIide~d~l-----------------------------------~~~a~n~Llk~lEep----~~~~~fIl~  144 (207)
T d1a5ta2         104 ARLGGAKVVWVTDAALL-----------------------------------TDAAANALLKTLEEP----PAETWFFLA  144 (207)
T ss_dssp             CTTSSCEEEEESCGGGB-----------------------------------CHHHHHHHHHHHTSC----CTTEEEEEE
T ss_pred             cccCccceEEechhhhh-----------------------------------hhhhhHHHHHHHHhh----cccceeeee
Confidence               24569999999986                                   234678899999864    456889999


Q ss_pred             cCCCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          353 TNYVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       353 TN~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      ||++.+|.|++++  |+ ..|.|+.|+.++...+++.-.
T Consensus       145 t~~~~~ll~tI~S--Rc-~~i~~~~~~~~~~~~~L~~~~  180 (207)
T d1a5ta2         145 TREPERLLATLRS--RC-RLHYLAPPPEQYAVTWLSREV  180 (207)
T ss_dssp             ESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHC
T ss_pred             ecChhhhhhhhcc--ee-EEEecCCCCHHHHHHHHHHcC
Confidence            9999999999999  98 799999999999888876544

>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=99.50  E-value=3.2e-13  Score=129.99  Aligned_cols=149  Identities=23%  Similarity=0.344  Sum_probs=106.5

Q ss_pred             ccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCC--------h
Q 037859          208 FDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQD--------N  265 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~--------~  265 (504)
                      ++.+++.++..++++.-|    ++++||.||||+|||++++.+|..+          +..++.++++.+..        .
T Consensus        17 ld~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e   96 (268)
T d1r6bx2          17 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFE   96 (268)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHH
T ss_pred             CCcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHH
Confidence            445677777778888877    5679999999999999999999764          67899999887632        2


Q ss_pred             HHHHHHHHhc--cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccC
Q 037859          266 SELRSLLIDT--SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSAS  343 (504)
Q Consensus       266 ~~l~~l~~~~--~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~  343 (504)
                      ..+..++.+.  ..+.|+||||++.++...                           ....+...+..+|...     ..
T Consensus        97 ~r~~~i~~~~~~~~~iIlfiDeih~l~~~g---------------------------~~~g~~~d~a~~Lkp~-----L~  144 (268)
T d1r6bx2          97 KRFKALLKQLEQDTNSILFIDEIHTIIGAG---------------------------AASGGQVDAANLIKPL-----LS  144 (268)
T ss_dssp             HHHHHHHHHHSSSSCEEEEETTTTTTTTSC---------------------------CSSSCHHHHHHHHSSC-----SS
T ss_pred             HHHHHHHHHhhccCCceEEecchHHHhcCC---------------------------CCCCccccHHHHhhHH-----Hh
Confidence            4566677665  357899999999986311                           1112233455555432     22


Q ss_pred             CCceEEEEecCCC-----CCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          344 GEERIIVFTTNYV-----DKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       344 ~~~~ivI~tTN~~-----e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .+++.+|+||...     ..-||||.|  || .+|.+..|+.++-..|++.+.
T Consensus       145 rg~i~vIgatT~eey~~~~e~d~al~r--rF-~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         145 SGKIRVIGSTTYQEFSNIFEKDRALAR--RF-QKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             SCCCEEEEEECHHHHHCCCCCTTSSGG--GE-EEEECCCCCHHHHHHHHHHHH
T ss_pred             CCCCeEEEeCCHHHHHHHHhhcHHHHh--hh-cccccCCCCHHHHHHHHHHhh
Confidence            4667788877522     244999999  99 589999999999999887653

>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=99.47  E-value=1e-13  Score=137.22  Aligned_cols=145  Identities=17%  Similarity=0.312  Sum_probs=108.5

Q ss_pred             ccccChhHHHHHHHhh------------ccc-ccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChH----------
Q 037859          210 TLAMETKKKEEIKKDL------------KKG-YLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNS----------  266 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l------------~rg-~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~----------  266 (504)
                      .|+++++.++.|...+            |.+ +||+||||||||.||+++|..++.+++.++++.+.+..          
T Consensus        23 ~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~~l~g~~~  102 (315)
T d1r6bx3          23 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPP  102 (315)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCCS
T ss_pred             eecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhhhcccCC
Confidence            4678888888887766            443 78999999999999999999999999999998763211          


Q ss_pred             ---------HHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhc
Q 037859          267 ---------ELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFID  337 (504)
Q Consensus       267 ---------~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lD  337 (504)
                               .+... ......+|+++||||.+                                   +..+.+.||..+|
T Consensus       103 gy~g~~~~~~l~~~-~~~~~~~vvl~DeieKa-----------------------------------~~~V~~~lLqild  146 (315)
T d1r6bx3         103 GYVGFDQGGLLTDA-VIKHPHAVLLLDEIEKA-----------------------------------HPDVFNILLQVMD  146 (315)
T ss_dssp             CSHHHHHTTHHHHH-HHHCSSEEEEEETGGGS-----------------------------------CHHHHHHHHHHHH
T ss_pred             CccccccCChhhHH-HHhCccchhhhcccccc-----------------------------------cchHhhhhHHhhc
Confidence                     12222 23456799999999984                                   2236677777775


Q ss_pred             Ccc--cc-----CCCceEEEEecCCC-------------------------CCCChhhhcCCCceeEEEecCCCHHHHHH
Q 037859          338 GLW--SA-----SGEERIIVFTTNYV-------------------------DKLDPALIRRGRMDKHIEMSYCCFEAFKV  385 (504)
Q Consensus       338 g~~--~~-----~~~~~ivI~tTN~~-------------------------e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~  385 (504)
                      .-.  ..     .-.+.|+|+|||--                         ..+.|.|+.  |+|..|.|.+.+.++...
T Consensus       147 ~G~ltd~~Gr~vdf~n~iiI~Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~ii~f~~l~~~~~~~  224 (315)
T d1r6bx3         147 NGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQ  224 (315)
T ss_dssp             HSEEEETTTEEEECTTEEEEEEECSSCC-----------------CHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHH
T ss_pred             cceecCCCCCccCccceEEEeccchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHh--hhhhhhcccchhhhHHHH
Confidence            321  01     11346899999932                         136788888  999999999999999999


Q ss_pred             HHHHhcC
Q 037859          386 LAKNYLD  392 (504)
Q Consensus       386 i~~~~l~  392 (504)
                      |+..++.
T Consensus       225 I~~~~l~  231 (315)
T d1r6bx3         225 VVDKFIV  231 (315)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988763

>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=99.42  E-value=3.4e-14  Score=129.99  Aligned_cols=144  Identities=21%  Similarity=0.288  Sum_probs=97.6

Q ss_pred             ccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCC--------h
Q 037859          208 FDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQD--------N  265 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~--------~  265 (504)
                      ++.+++.++..++++.-+    +.+++|.||||+|||++++.+|..+          +.++|.++++.+..        .
T Consensus        21 ld~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~E  100 (195)
T d1jbka_          21 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFE  100 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHH
T ss_pred             CCCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHHH
Confidence            455677777778888777    5679999999999999999999754          68899999887632        2


Q ss_pred             HHHHHHHHhc---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc
Q 037859          266 SELRSLLIDT---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA  342 (504)
Q Consensus       266 ~~l~~l~~~~---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~  342 (504)
                      ..+..++.+.   ..+.||||||++.++...+.                        .+.......+...|.        
T Consensus       101 ~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~------------------------~g~~d~~~~Lkp~L~--------  148 (195)
T d1jbka_         101 ERLKGVLNDLAKQEGNVILFIDELHTMVGAGKA------------------------DGAMDAGNMLKPALA--------  148 (195)
T ss_dssp             HHHHHHHHHHHHSTTTEEEEEETGGGGTT------------------------------CCCCHHHHHHHHH--------
T ss_pred             HHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCC------------------------CCcccHHHHHHHHHh--------
Confidence            3466666654   24689999999998631110                        011111122222222        


Q ss_pred             CCCceEEEEecCCCC-----CCChhhhcCCCceeEEEecCCCHHHHHHHH
Q 037859          343 SGEERIIVFTTNYVD-----KLDPALIRRGRMDKHIEMSYCCFEAFKVLA  387 (504)
Q Consensus       343 ~~~~~ivI~tTN~~e-----~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~  387 (504)
                       .++..+|+||...+     .-||||.|  || .+|.+..|+.++-..|+
T Consensus       149 -rg~l~~IgatT~eey~~~~e~d~aL~r--rF-~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         149 -RGELHCVGATTLDEYRQYIEKDAALER--RF-QKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             -TTSCCEEEEECHHHHHHHTTTCHHHHT--TE-EEEECCCCCHHHHHTTC
T ss_pred             -CCCceEEecCCHHHHHHHHHcCHHHHh--cC-CEeecCCCCHHHHHHHh
Confidence             24566777664221     23999999  99 58999999998866553

>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=99.42  E-value=1.3e-12  Score=125.35  Aligned_cols=154  Identities=10%  Similarity=0.045  Sum_probs=97.4

Q ss_pred             ccccccChhHHHHHHHhh-------------cccccccCCCCCcHHHHHHHHHHhcC---------CcEEEEeccccCCh
Q 037859          208 FDTLAMETKKKEEIKKDL-------------KKGYLLYGPPGTGKSTMIAAMANFLN---------YDVYDLELTTVQDN  265 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l-------------~rg~LL~GPpGtGKTsla~aiA~~l~---------~~i~~l~~~~~~~~  265 (504)
                      .+++...++..++|...+             ...++||||||||||++++++|+.+.         ..+..+++......
T Consensus        15 P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   94 (287)
T d1w5sa2          15 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL   94 (287)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccch
Confidence            356667777777777765             11368899999999999999999872         33445555443221


Q ss_pred             ----------------------HHHHHHH----HhccCCeEEEEecccccccccccccccccccccccccCccccccccc
Q 037859          266 ----------------------SELRSLL----IDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKED  319 (504)
Q Consensus       266 ----------------------~~l~~l~----~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (504)
                                            ..+.+.+    .....+.++++||+|.+....                          
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~--------------------------  148 (287)
T d1w5sa2          95 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSP--------------------------  148 (287)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCT--------------------------
T ss_pred             hhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEecccc--------------------------
Confidence                                  1122222    223467889999999864210                          


Q ss_pred             CCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCC------CChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          320 GGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDK------LDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       320 ~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~------Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .........+..+++.+.....  .....+|+.+|..+.      .++++.+  |++.+++|+.++.+++..|++..+
T Consensus       149 ~~~~~~~~~l~~l~~~l~~~~~--~~~~~~i~i~~~~~~~~~~~~~~~~~~~--r~~~~i~f~~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         149 RIAAEDLYTLLRVHEEIPSRDG--VNRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPAYKSRELYTILEQRA  222 (287)
T ss_dssp             TSCHHHHHHHHTHHHHSCCTTS--CCBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             ccchhHHHHHHHHHHhcchhhc--ccceeEEeecccHHHHHHHHhhccchhc--ccceeeeccCCcHHHHHHHHhhhH
Confidence            1112223344455555544422  233556666655442      3578888  999999999999999999998765

>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=99.41  E-value=7.3e-13  Score=134.13  Aligned_cols=146  Identities=19%  Similarity=0.338  Sum_probs=92.1

Q ss_pred             ccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhc----------CCcEEEEeccccCCh--------
Q 037859          208 FDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL----------NYDVYDLELTTVQDN--------  265 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~~--------  265 (504)
                      ++.+++.+...++++..|    +.+.||.||||+|||+++..+|..+          +..++.++++.+..+        
T Consensus        21 ld~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~e  100 (387)
T d1qvra2          21 LDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFE  100 (387)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHH
T ss_pred             CCCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhHH
Confidence            455677888888888887    6669999999999999999999754          577999999887433        


Q ss_pred             HHHHHHHHhc---cCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhh-hhcCccc
Q 037859          266 SELRSLLIDT---SSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLN-FIDGLWS  341 (504)
Q Consensus       266 ~~l~~l~~~~---~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~-~lDg~~~  341 (504)
                      ..+..++...   ..+.||||||++.++...+.                            .+...+..+|. .|     
T Consensus       101 ~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~----------------------------~g~~d~a~~Lkp~L-----  147 (387)
T d1qvra2         101 ERLKAVIQEVVQSQGEVILFIDELHTVVGAGKA----------------------------EGAVDAGNMLKPAL-----  147 (387)
T ss_dssp             HHHHHHHHHHHTTCSSEEEEECCC-----------------------------------------------HHHH-----
T ss_pred             HHHHHHHHHhccCCCceEEEeccHHHHhcCCCC----------------------------CCcccHHHHHHHHH-----
Confidence            3455555554   34689999999998631110                            01112222322 22     


Q ss_pred             cCCCceEEEEecC-----CCCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          342 ASGEERIIVFTTN-----YVDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       342 ~~~~~~ivI~tTN-----~~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      . .+++-+|+||.     ..++ |+||.|  || ..|.+..|+.++-..|++...
T Consensus       148 ~-rg~~~~I~~tT~~ey~~~e~-d~al~r--rF-~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         148 A-RGELRLIGATTLDEYREIEK-DPALER--RF-QPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             H-TTCCCEEEEECHHHHHHHTT-CTTTCS--CC-CCEEECCCCHHHHHHHHHHHH
T ss_pred             h-CCCcceeeecCHHHHHHhcc-cHHHHH--hc-ccccCCCCcHHHHHHHHHHHH
Confidence            1 24455666553     2355 999999  99 589999999999988887653

>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=99.40  E-value=4.8e-13  Score=132.25  Aligned_cols=144  Identities=17%  Similarity=0.335  Sum_probs=105.8

Q ss_pred             ccccChhHHHHHHHhh------------ccc-ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChH-------
Q 037859          210 TLAMETKKKEEIKKDL------------KKG-YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNS-------  266 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l------------~rg-~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~-------  266 (504)
                      .++++++.++.|...+            |.+ +||+||||||||.+|+++|..+   +.+++.++++...+..       
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            3566777777766655            443 6889999999999999999998   6789999988764321       


Q ss_pred             ------------HHHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhhHHHHHhh
Q 037859          267 ------------ELRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLN  334 (504)
Q Consensus       267 ------------~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~  334 (504)
                                  .|...+. ....|||+|||||.+                                   +......|+.
T Consensus       104 ~~~gyvG~~~~~~l~~~~~-~~p~~Vvl~DEieK~-----------------------------------~~~v~~~ll~  147 (315)
T d1qvra3         104 APPGYVGYEEGGQLTEAVR-RRPYSVILFDEIEKA-----------------------------------HPDVFNILLQ  147 (315)
T ss_dssp             ------------CHHHHHH-HCSSEEEEESSGGGS-----------------------------------CHHHHHHHHH
T ss_pred             CCCCCcCcccCChHHHHHH-hCCCcEEEEehHhhc-----------------------------------CHHHHHHHHH
Confidence                        2333332 235799999999985                                   1235666676


Q ss_pred             hhcCcccc-------CCCceEEEEecCC--------------------------CCCCChhhhcCCCceeEEEecCCCHH
Q 037859          335 FIDGLWSA-------SGEERIIVFTTNY--------------------------VDKLDPALIRRGRMDKHIEMSYCCFE  381 (504)
Q Consensus       335 ~lDg~~~~-------~~~~~ivI~tTN~--------------------------~e~Ld~ALlRpGR~d~~I~~~~p~~e  381 (504)
                      .+|.-.-.       .-.+.++|+|||-                          .+.+.|.++.  |||..+.|...+.+
T Consensus       148 ~l~~g~~~~~~gr~v~~~~~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~Ii~F~~L~~~  225 (315)
T d1qvra3         148 ILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKE  225 (315)
T ss_dssp             HHTTTEECCSSSCCEECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCCCCHH
T ss_pred             HhccCceeCCCCcEecCcceEEEEecccChHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHh--cCCeeeeccchhhh
Confidence            66643211       1234789999994                          3568999999  99999999999999


Q ss_pred             HHHHHHHHhc
Q 037859          382 AFKVLAKNYL  391 (504)
Q Consensus       382 ~~~~i~~~~l  391 (504)
                      ....|+...+
T Consensus       226 ~~~~I~~~~l  235 (315)
T d1qvra3         226 QIRQIVEIQL  235 (315)
T ss_dssp             HHHHHHHHHH
T ss_pred             hhHHHHHHHH
Confidence            9999988766

>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=99.36  E-value=7.2e-13  Score=131.89  Aligned_cols=143  Identities=22%  Similarity=0.276  Sum_probs=96.0

Q ss_pred             cccccccChhHHHHHHHhh----cccccccCCCCCcHHHHHHHHHHhcC-------------------------------
Q 037859          207 TFDTLAMETKKKEEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFLN-------------------------------  251 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l~-------------------------------  251 (504)
                      .|.++++++..|..++-.+    ..++||+||||||||++|+++|.-|.                               
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIR   84 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSCCCEEE
T ss_pred             ChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCccccccchhhccccCccc
Confidence            5999999999998766433    35699999999999999999998661                               


Q ss_pred             --CcEEEEeccccCChHHH------HHHHHh-----------ccCCeEEEEecccccccccccccccccccccccccCcc
Q 037859          252 --YDVYDLELTTVQDNSEL------RSLLID-----------TSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPI  312 (504)
Q Consensus       252 --~~i~~l~~~~~~~~~~l------~~l~~~-----------~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~  312 (504)
                        .+++.....  .+...+      ...+..           .....|+|||||+.+                       
T Consensus        85 ~~~~~~~~~~~--~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~-----------------------  139 (333)
T d1g8pa_          85 KPTPVVDLPLG--VSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLL-----------------------  139 (333)
T ss_dssp             ECCCEEEECTT--CCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGS-----------------------
T ss_pred             ccCceeeccCC--CCcccccCcchhhhccccCcceeeccccccccccEeecccHHHH-----------------------
Confidence              112211111  111221      122211           124689999999875                       


Q ss_pred             cccccccCCCcchhhHHHHHhhhhcC---------ccccCCCceEEEEecCCCC-CCChhhhcCCCceeEEEecCC-CHH
Q 037859          313 EKKEKEDGGSKKSKVTLSGLLNFIDG---------LWSASGEERIIVFTTNYVD-KLDPALIRRGRMDKHIEMSYC-CFE  381 (504)
Q Consensus       313 ~~~~~~~~~~~~~~~~ls~lL~~lDg---------~~~~~~~~~ivI~tTN~~e-~Ld~ALlRpGR~d~~I~~~~p-~~e  381 (504)
                                  ...+++.|+..|+.         .........++|+|+|..+ .+++++++  |||.+|.+++| +.+
T Consensus       140 ------------~~~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~~~~l~~~llD--Rf~~~i~v~~~~~~~  205 (333)
T d1g8pa_         140 ------------EDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVE  205 (333)
T ss_dssp             ------------CHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHH
T ss_pred             ------------HHHHHHHHhhhhcCCeEEecccCceecCCCCEEEEEecCccccccccchhh--hhcceeeccCcchhh
Confidence                        23578889988862         2111123457888888654 69999999  99999999988 445


Q ss_pred             HHHHHHH
Q 037859          382 AFKVLAK  388 (504)
Q Consensus       382 ~~~~i~~  388 (504)
                      .+..+..
T Consensus       206 ~~~~~~~  212 (333)
T d1g8pa_         206 TRVEVIR  212 (333)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555443

>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=99.32  E-value=5.8e-12  Score=126.65  Aligned_cols=143  Identities=24%  Similarity=0.308  Sum_probs=97.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCC--------hHHHHHHHHhcc------CCeEEEEeccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQD--------NSELRSLLIDTS------SKSILVIEDIDCSLD  291 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~--------~~~l~~l~~~~~------~~~Il~iDeiD~~~~  291 (504)
                      +..+||.||+|||||.+|++||..++.+++.++++.+..        ...+..++...+      +.+|+++||||...+
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~~~~~~~ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~  147 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISR  147 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--
T ss_pred             CcceeeeCCCCccHHHHHHHHHhhcccceeehhhhhcccchhhHhhhccchhhhhhhchhHHHHhhcccchhhhhhhhcc
Confidence            455999999999999999999999999999999998743        456777765543      579999999999642


Q ss_pred             ccccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCcccc---------CCCceEEEEecCC-------
Q 037859          292 LTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSA---------SGEERIIVFTTNY-------  355 (504)
Q Consensus       292 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~---------~~~~~ivI~tTN~-------  355 (504)
                      .....                     ....+.....+.+.||+.+||-...         ...+.++|+|+|-       
T Consensus       148 ~s~~~---------------------~~~~d~a~~~V~~~lLqild~~~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga  206 (364)
T d1um8a_         148 LSENR---------------------SITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGA  206 (364)
T ss_dssp             ---------------------------------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEEC
T ss_pred             ccccc---------------------cccccccchHHHHhhhhhhcCceeccCCCCCCcCCcceeEEEeehhhhhhhccc
Confidence            11110                     0111223455788899999852210         1123567777774       


Q ss_pred             ------------------------------------------CCCCChhhhcCCCceeEEEecCCCHHHHHHHHHHhc
Q 037859          356 ------------------------------------------VDKLDPALIRRGRMDKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       356 ------------------------------------------~e~Ld~ALlRpGR~d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                                                                +..+.|.|+-  |+|.+|.|...+.+...+|+....
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEf~g--Ri~~iv~f~~L~~~~l~~Il~~~~  282 (364)
T d1um8a_         207 FDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELIG--RLPVLSTLDSISLEAMVDILQKPK  282 (364)
T ss_dssp             CTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHHT--TCCEEEECCCCCHHHHHHHHHSST
T ss_pred             chhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhhhhHHHHHH--HhcchhhHhhhhHHHHHHHHHHHH
Confidence                                                      1125677777  999999999999999999986543

>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=99.31  E-value=2.1e-11  Score=115.96  Aligned_cols=147  Identities=18%  Similarity=0.113  Sum_probs=96.7

Q ss_pred             ccccccChhHHHHHHHhh----------cccccccCCCCCcHHHHHHHHHHhcC----CcEEEEeccccCCh--------
Q 037859          208 FDTLAMETKKKEEIKKDL----------KKGYLLYGPPGTGKSTMIAAMANFLN----YDVYDLELTTVQDN--------  265 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l----------~rg~LL~GPpGtGKTsla~aiA~~l~----~~i~~l~~~~~~~~--------  265 (504)
                      ++++++.+...+.|.+.+          ++++|||||||||||++++++|+.+.    ..++.+++......        
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIA   94 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhhhhhH
Confidence            356677787777777776          36799999999999999999999873    45666655443211        


Q ss_pred             --------------HH----HHHHHHhccCCeEEEEecccccccccccccccccccccccccCcccccccccCCCcchhh
Q 037859          266 --------------SE----LRSLLIDTSSKSILVIEDIDCSLDLTGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKV  327 (504)
Q Consensus       266 --------------~~----l~~l~~~~~~~~Il~iDeiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  327 (504)
                                    ..    +...+.......++++|++|.+..                                ....
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~--------------------------------~~~~  142 (276)
T d1fnna2          95 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAP--------------------------------DILS  142 (276)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCH--------------------------------HHHH
T ss_pred             HhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhh--------------------------------hhhh
Confidence                          11    112222334567888999987521                                1122


Q ss_pred             HHHHHhhhhcCccccCCCceEEEEecCCC---CCCChhhhcCCCc-eeEEEecCCCHHHHHHHHHHhc
Q 037859          328 TLSGLLNFIDGLWSASGEERIIVFTTNYV---DKLDPALIRRGRM-DKHIEMSYCCFEAFKVLAKNYL  391 (504)
Q Consensus       328 ~ls~lL~~lDg~~~~~~~~~ivI~tTN~~---e~Ld~ALlRpGR~-d~~I~~~~p~~e~~~~i~~~~l  391 (504)
                      .+..++..+...   .....++|+++|..   +.+++++.+  |+ ...|.|+.++.+++..|++..+
T Consensus       143 ~~~~~~~~~~~~---~~~~~~~i~~~~~~~~~~~~~~~~~~--r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         143 TFIRLGQEADKL---GAFRIALVIVGHNDAVLNNLDPSTRG--IMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             HHHHHTTCHHHH---SSCCEEEEEEESSTHHHHTSCHHHHH--HHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             hHHHHHhccccc---cccceEEeecCCchhhhhhcchhhhh--hhcchhccccchhHHHHHHHHHHHH
Confidence            233333333222   23446788888864   578899887  54 3568999999999999988765

>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=99.24  E-value=1.2e-11  Score=115.34  Aligned_cols=128  Identities=19%  Similarity=0.279  Sum_probs=82.8

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCCh-------HHHHHHHHhccCCeEEEEecccccccccccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDN-------SELRSLLIDTSSKSILVIEDIDCSLDLTGQR  296 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~-------~~l~~l~~~~~~~~Il~iDeiD~~~~~~~~~  296 (504)
                      +.++||||||||||+|+.|+|+++   +..+++++.......       ......+.....-.+|+|||||.+.   +  
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dll~iDDi~~i~---~--  111 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFLS---G--  111 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGGT---T--
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHHHHHHHccchhhHHHHHhhccchhhhhhhhhc---C--
Confidence            448999999999999999999987   566777766544210       0112223333467899999999863   1  


Q ss_pred             cccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCC---CChhhhcCCCc--ee
Q 037859          297 EKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDK---LDPALIRRGRM--DK  371 (504)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~---Ld~ALlRpGR~--d~  371 (504)
                                               .......+-.++|.+-     ..+..+||.+...|..   +.|.|..  |+  ..
T Consensus       112 -------------------------~~~~~~~lf~lin~~~-----~~~~~iiits~~~p~~l~~~~~dL~S--RL~~g~  159 (213)
T d1l8qa2         112 -------------------------KERTQIEFFHIFNTLY-----LLEKQIILASDRHPQKLDGVSDRLVS--RFEGGI  159 (213)
T ss_dssp             -------------------------CHHHHHHHHHHHHHHH-----HTTCEEEEEESSCGGGCTTSCHHHHH--HHHTSE
T ss_pred             -------------------------chHHHHHHHHHHHHHh-----hccceEEEecCCcchhccccchHHHH--HhhCce
Confidence                                     1223334555555432     1234566655556654   4588887  65  36


Q ss_pred             EEEecCCCHHHHHHHHHHhcC
Q 037859          372 HIEMSYCCFEAFKVLAKNYLD  392 (504)
Q Consensus       372 ~I~~~~p~~e~~~~i~~~~l~  392 (504)
                      .+.++ |+.+.+..+++.+..
T Consensus       160 ~~~i~-p~d~~~~~iL~~~a~  179 (213)
T d1l8qa2         160 LVEIE-LDNKTRFKIIKEKLK  179 (213)
T ss_dssp             EEECC-CCHHHHHHHHHHHHH
T ss_pred             EEEEC-CCcHHHHHHHHHHHH
Confidence            67776 677889889888764

>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=99.20  E-value=4.4e-11  Score=110.05  Aligned_cols=112  Identities=13%  Similarity=0.179  Sum_probs=87.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcC------CcEEEEeccccC-ChHHHHHHHHhc------cCCeEEEEecccccccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLN------YDVYDLELTTVQ-DNSELRSLLIDT------SSKSILVIEDIDCSLDL  292 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~------~~i~~l~~~~~~-~~~~l~~l~~~~------~~~~Il~iDeiD~~~~~  292 (504)
                      +..+|||||||||||++|..+|+++.      .+++.+...+-. +-+.+|.+....      ...-|++|||+|.+   
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~~~~~~~~~KviIId~ad~l---   91 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERM---   91 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEEEETTGGGB---
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHhhCcccCCCEEEEEeCcccc---
Confidence            55699999999999999999999773      358888764322 456677665443      24569999999986   


Q ss_pred             cccccccccccccccccCcccccccccCCCcchhhHHHHHhhhhcCccccCCCceEEEEecCCCCCCChhhhcCCCceeE
Q 037859          293 TGQREKKKEKDEDKEEKNPIEKKEKEDGGSKKSKVTLSGLLNFIDGLWSASGEERIIVFTTNYVDKLDPALIRRGRMDKH  372 (504)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~lL~~lDg~~~~~~~~~ivI~tTN~~e~Ld~ALlRpGR~d~~  372 (504)
                                                      +....+.||..|+..    +...++|++||+++.|.|+++.  |+ .+
T Consensus        92 --------------------------------~~~aqNaLLK~LEEP----p~~t~fiLit~~~~~ll~TI~S--RC-~~  132 (198)
T d2gnoa2          92 --------------------------------TQQAANAFLKALEEP----PEYAVIVLNTRRWHYLLPTIKS--RV-FR  132 (198)
T ss_dssp             --------------------------------CHHHHHHTHHHHHSC----CTTEEEEEEESCGGGSCHHHHT--TS-EE
T ss_pred             --------------------------------chhhhhHHHHHHhCC----CCCceeeeccCChhhCHHHHhc--ce-EE
Confidence                                            345678899999854    4568899999999999999999  98 68


Q ss_pred             EEecCCC
Q 037859          373 IEMSYCC  379 (504)
Q Consensus       373 I~~~~p~  379 (504)
                      +.|+.|.
T Consensus       133 i~~~~p~  139 (198)
T d2gnoa2         133 VVVNVPK  139 (198)
T ss_dssp             EECCCCH
T ss_pred             EeCCCch
Confidence            9998775

>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=98.88  E-value=6.8e-09  Score=106.44  Aligned_cols=38  Identities=29%  Similarity=0.488  Sum_probs=36.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccC
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQ  263 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  263 (504)
                      |+++||.||||||||.||++||+.++.|++.++++.+.
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~fT   86 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFT   86 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHhCCCEEEeecceee
Confidence            78999999999999999999999999999999998863

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.85  E-value=6.5e-09  Score=98.29  Aligned_cols=55  Identities=27%  Similarity=0.190  Sum_probs=47.7

Q ss_pred             ccccccChhHHHHHHHhhcccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc
Q 037859          208 FDTLAMETKKKEEIKKDLKKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV  262 (504)
Q Consensus       208 f~~~~~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  262 (504)
                      -+.+.+.++..+++.+..++.+++|||+|+|||+|++.++..++.+.+.+++...
T Consensus        11 ~~~f~GR~~el~~l~~~~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~~~   65 (283)
T d2fnaa2          11 RKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKF   65 (283)
T ss_dssp             GGGSCCCHHHHHHHHHTCSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             hhhCCChHHHHHHHHhccCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEeccc
Confidence            4677888888888888778889999999999999999999999999888877543

>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=98.79  E-value=2.2e-08  Score=94.79  Aligned_cols=78  Identities=17%  Similarity=0.238  Sum_probs=56.4

Q ss_pred             ccChhHHHHHHHhh------cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccCChHHHHHHHHhc-------
Q 037859          212 AMETKKKEEIKKDL------KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQDNSELRSLLIDT-------  275 (504)
Q Consensus       212 ~~~~~~k~~i~~~l------~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~~l~~l~~~~-------  275 (504)
                      +++....+++++.+      ...+||+||||||||.+|++|....   ..+++.+++..+........+|...       
T Consensus         3 v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~~lfg~~~~~~~~~   82 (247)
T d1ny5a2           3 VFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGA   82 (247)
T ss_dssp             CCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCTTSSTTC
T ss_pred             EecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHHHhcCcccCCcCCc
Confidence            44555556666655      5679999999999999999998765   3468888988876544444454321       


Q ss_pred             ----------cCCeEEEEeccccc
Q 037859          276 ----------SSKSILVIEDIDCS  289 (504)
Q Consensus       276 ----------~~~~Il~iDeiD~~  289 (504)
                                .....|||||||.+
T Consensus        83 ~~~~~g~l~~a~gGtL~l~~i~~L  106 (247)
T d1ny5a2          83 VSSKEGFFELADGGTLFLDEIGEL  106 (247)
T ss_dssp             CSCBCCHHHHTTTSEEEEESGGGC
T ss_pred             ccccCCHHHccCCCEEEEeChHhC
Confidence                      23468999999986

>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=98.75  E-value=9e-10  Score=104.74  Aligned_cols=37  Identities=27%  Similarity=0.430  Sum_probs=34.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEecccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTV  262 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  262 (504)
                      |+|||||||||||||++|+++|++++.+++.++.+.+
T Consensus        32 P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~~   68 (273)
T d1gvnb_          32 PTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTF   68 (273)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhhcceEEEecHHH
Confidence            8899999999999999999999999999999987554

>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=98.15  E-value=3.6e-07  Score=78.73  Aligned_cols=33  Identities=42%  Similarity=0.687  Sum_probs=29.6

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +|.++|.|||||||||++++||..|++++++.+
T Consensus         2 ~k~I~l~G~~GsGKSTvak~La~~L~~~~id~~   34 (169)
T d1kaga_           2 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD   34 (169)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHTTCEEEEHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            467899999999999999999999999987643

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.99  E-value=1.1e-06  Score=77.20  Aligned_cols=32  Identities=22%  Similarity=0.247  Sum_probs=28.7

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      .|-+++.|||||||||||++||..++.+++..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~~~~i~~   38 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFNTTSAWE   38 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCEEECC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCCeEee
Confidence            46799999999999999999999999887654

>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=97.98  E-value=9e-06  Score=71.23  Aligned_cols=24  Identities=29%  Similarity=0.623  Sum_probs=21.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      ++|.||||||||||+++|++.+..
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCC
Confidence            689999999999999999998754

>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=97.95  E-value=1.2e-06  Score=76.27  Aligned_cols=30  Identities=30%  Similarity=0.470  Sum_probs=27.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      -++|.|||||||||+|++||..+|++++++
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l~~~~i~~   35 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKSGLKYINV   35 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCcEEec
Confidence            367899999999999999999999998764

>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=97.95  E-value=0.00018  Score=68.05  Aligned_cols=40  Identities=20%  Similarity=0.213  Sum_probs=31.8

Q ss_pred             cccChhHHHHHHHhh-------cccccccCCCCCcHHHHHHHHHHhc
Q 037859          211 LAMETKKKEEIKKDL-------KKGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       211 ~~~~~~~k~~i~~~l-------~rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.+.+...++|++.+       .+-+.|||++|+|||+||+.+++..
T Consensus        22 ~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          22 CYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             SCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             eeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhh
Confidence            345777788888877       2346799999999999999998763

>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=97.93  E-value=1.5e-06  Score=76.02  Aligned_cols=32  Identities=34%  Similarity=0.449  Sum_probs=29.1

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +.++|.||||+|||++++++|..+|+++++++
T Consensus         1 k~I~liG~~GsGKsTi~k~La~~l~~~~~d~d   32 (161)
T d1viaa_           1 KNIVFIGFMGSGKSTLARALAKDLDLVFLDSD   32 (161)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhCCCEEecC
Confidence            45788999999999999999999999999764

>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=97.86  E-value=2.3e-06  Score=74.73  Aligned_cols=33  Identities=36%  Similarity=0.480  Sum_probs=29.8

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      +-++|.|||||||||+++++|..++.+++.++.
T Consensus         5 ~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~   37 (176)
T d1zp6a1           5 NILLLSGHPGSGKSTIAEALANLPGVPKVHFHS   37 (176)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTCSSSCEEEECT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCEEEecH
Confidence            457899999999999999999999999998764

>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=97.85  E-value=2.5e-06  Score=75.10  Aligned_cols=32  Identities=25%  Similarity=0.455  Sum_probs=29.0

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +.++|.|||||||||+++.+|..+|+++++.+
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~~~id~D   34 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGYEFVDTD   34 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCCCEEehh
Confidence            56788999999999999999999999988753

>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=97.82  E-value=4.5e-06  Score=72.67  Aligned_cols=34  Identities=18%  Similarity=0.298  Sum_probs=30.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEec
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLEL  259 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  259 (504)
                      ++-++|+||||+||||+|++||..++.+.+.++.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~~~   36 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGV   36 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCCeEEeec
Confidence            3568899999999999999999999998887654

>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=97.81  E-value=3e-06  Score=74.14  Aligned_cols=30  Identities=37%  Similarity=0.543  Sum_probs=27.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      +.|.|+|||||||+++.+|..+|+++++++
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            556699999999999999999999998765

>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=97.78  E-value=3.3e-06  Score=76.08  Aligned_cols=57  Identities=19%  Similarity=0.340  Sum_probs=39.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCeEEEEecccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDC  288 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~  288 (504)
                      ++.++|||||+||||+++.+|++.++-.+  ++...-.+    .--+......-|+++||+-.
T Consensus        53 kn~i~~~GP~~TGKS~f~~sl~~~l~G~v--is~~N~~s----~F~Lq~l~~~kv~l~dD~t~  109 (205)
T d1tuea_          53 KNCLVFCGPANTGKSYFGMSFIHFIQGAV--ISFVNSTS----HFWLEPLTDTKVAMLDDATT  109 (205)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHHHHTCEE--CCCCCSSS----CGGGGGGTTCSSEEEEEECH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHhCCEE--EeccCCCC----CcccccccCCeEEEEecccc
Confidence            56689999999999999999999986433  32222111    12234445677899999743

>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=97.75  E-value=5.5e-06  Score=71.76  Aligned_cols=30  Identities=43%  Similarity=0.688  Sum_probs=26.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      ++-++|.|||||||||+|++||..++..++
T Consensus         2 ~klI~i~G~~GsGKTTva~~L~~~~~~~~~   31 (176)
T d2bdta1           2 KKLYIITGPAGVGKSTTCKRLAAQLDNSAY   31 (176)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHSSSEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCCEE
Confidence            356889999999999999999999987654

>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=97.75  E-value=4.6e-06  Score=72.62  Aligned_cols=33  Identities=30%  Similarity=0.469  Sum_probs=28.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      ++-++|+|||||||||++++||..++.+.+..+
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            345789999999999999999999998776543

>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=97.65  E-value=7.4e-06  Score=71.54  Aligned_cols=24  Identities=42%  Similarity=0.798  Sum_probs=22.7

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      |.++|+||||||||+|+++++..+
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            689999999999999999999887

>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=97.64  E-value=1.2e-05  Score=70.01  Aligned_cols=27  Identities=44%  Similarity=0.683  Sum_probs=24.3

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      |+|  ++|.||||+||||+++.||..++.
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l~~   31 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAELDG   31 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHSTT
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHhCC
Confidence            456  899999999999999999999864

>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=97.54  E-value=1.8e-05  Score=70.50  Aligned_cols=28  Identities=32%  Similarity=0.476  Sum_probs=24.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      ++|.||||+||||+|+.||.++|+..+.
T Consensus         6 iil~G~pGSGKsT~a~~La~~~g~~~i~   33 (190)
T d1ak2a1           6 AVLLGPPGAGKGTQAPKLAKNFCVCHLA   33 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            5678999999999999999999877655

>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=97.49  E-value=2.8e-05  Score=68.59  Aligned_cols=60  Identities=22%  Similarity=0.180  Sum_probs=40.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhc-cCCeEEEEeccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDT-SSKSILVIEDID  287 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~-~~~~Il~iDeiD  287 (504)
                      |.-++|+|+|||||||+|+.++..+++..+  +...+.....+.+.+... .....++||...
T Consensus        14 p~liil~G~pGsGKST~a~~l~~~~~~~~i--~~D~~~~~~~~~~~~~~~l~~g~~vIiD~t~   74 (172)
T d1yj5a2          14 PEVVVAVGFPGAGKSTFIQEHLVSAGYVHV--NRDTLGSWQRCVSSCQAALRQGKRVVIDNTN   74 (172)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHTGGGTCEEE--EHHHHCSHHHHHHHHHHHHHTTCCEEEESCC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhcCCEEE--chHHHHHHHHHHHHHHHHHHCCCCceeeCcC
Confidence            556899999999999999999998886554  444455544454444332 344556666443

>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=97.48  E-value=1.7e-05  Score=68.88  Aligned_cols=27  Identities=30%  Similarity=0.412  Sum_probs=23.4

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      .+|  ++|.|+||+||||+|++||..|+.
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            356  778899999999999999998853

>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=97.44  E-value=0.00011  Score=69.26  Aligned_cols=56  Identities=21%  Similarity=0.324  Sum_probs=38.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEEEeccccCChHHHHHHHHhccCCeEEEEecccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELTTVQDNSELRSLLIDTSSKSILVIEDIDC  288 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~l~~~~~~~~Il~iDeiD~  288 (504)
                      ++.+.|||||+||||+++.+|++.+|.-.. ++  ...+.-    -+.....+.|+++||.+.
T Consensus       104 ~n~~~l~G~~~tGKS~f~~~i~~~lg~~~~-~~--~~~~~f----~l~~l~~k~~~~~~e~~~  159 (267)
T d1u0ja_         104 RNTIWLFGPATTGKTNIAEAIAHTVPFYGC-VN--WTNENF----PFNDCVDKMVIWWEEGKM  159 (267)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHSSCEEE-CC--TTCSSC----TTGGGSSCSEEEECSCCE
T ss_pred             cEEEEEEcCCCCCHHHHHHHHHHHhcchhh-cc--ccCCCc----cccccCCCEEEEEeCCCc
Confidence            455889999999999999999999965322 21  111111    134456778999999864

>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=97.44  E-value=2.8e-05  Score=68.33  Aligned_cols=29  Identities=24%  Similarity=0.354  Sum_probs=26.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|.||||+||||+|+.||.++|+..+..
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~~~~~i~~   31 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAYGIPHIST   31 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCceech
Confidence            67899999999999999999999876653

>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=97.42  E-value=2.4e-05  Score=69.80  Aligned_cols=31  Identities=23%  Similarity=0.361  Sum_probs=26.7

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      |.-+++.||||+||||+|+.||.++|+..+.
T Consensus         6 p~iI~i~G~pGSGKsT~a~~La~~~g~~~i~   36 (194)
T d1qf9a_           6 PNVVFVLGGPGSGKGTQCANIVRDFGWVHLS   36 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            3457899999999999999999999976554

>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=97.40  E-value=2.3e-05  Score=69.79  Aligned_cols=30  Identities=17%  Similarity=0.255  Sum_probs=26.6

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      --++|.|||||||||+|+.||..+|+..+.
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~~~~~is   33 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKYQLAHIS   33 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHCCcEEe
Confidence            458899999999999999999999988653

>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=97.37  E-value=3.8e-05  Score=67.70  Aligned_cols=29  Identities=38%  Similarity=0.567  Sum_probs=26.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|.|||||||||+|+.||..+|+..+..
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~g~~~i~~   31 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKLGIPQIST   31 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCceEch
Confidence            67889999999999999999999887654

>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=97.35  E-value=9.2e-06  Score=72.11  Aligned_cols=27  Identities=30%  Similarity=0.421  Sum_probs=23.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      ++|+|+||+||||+|++||..++..++
T Consensus        22 I~L~G~pGSGKTTiAk~La~~l~~~~~   48 (195)
T d1x6va3          22 VWLTGLSGAGKTTVSMALEEYLVCHGI   48 (195)
T ss_dssp             EEEESSCHHHHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCC
Confidence            668999999999999999999865433

>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=4.4e-05  Score=68.22  Aligned_cols=29  Identities=21%  Similarity=0.353  Sum_probs=25.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      -++|.||||+||||+|+.||.++|+..+.
T Consensus        10 iI~i~GppGSGKsT~a~~La~~~g~~~is   38 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKLVKDYSFVHLS   38 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            47788999999999999999999886654

>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=97.30  E-value=5.1e-05  Score=66.99  Aligned_cols=28  Identities=25%  Similarity=0.356  Sum_probs=25.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      ++|.||||+||||+|+.||..+|+..+.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~g~~~is   30 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKYGTPHIS   30 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCceee
Confidence            6789999999999999999999988665

>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=97.29  E-value=5e-05  Score=67.83  Aligned_cols=31  Identities=26%  Similarity=0.414  Sum_probs=26.6

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      ++-++|.||||+||||+|+.||..+|+..+.
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~g~~~is   38 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKYGYTHLS   38 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHTCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeeEe
Confidence            3457889999999999999999999876654

>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=97.28  E-value=5.8e-05  Score=67.40  Aligned_cols=29  Identities=21%  Similarity=0.442  Sum_probs=25.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|.||||+||||+++.||..+|+..++.
T Consensus         9 IiliG~PGSGKtT~a~~La~~~g~~~is~   37 (189)
T d2ak3a1           9 AAIMGAPGSGKGTVSSRITKHFELKHLSS   37 (189)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHBCCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEcH
Confidence            67789999999999999999999776543

>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=97.25  E-value=6.2e-05  Score=66.40  Aligned_cols=29  Identities=28%  Similarity=0.486  Sum_probs=25.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      ++|.||||+||||+++.||.++|+..+..
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g~~~i~~   33 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFHAAHLAT   33 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceEec
Confidence            56789999999999999999998775543

>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=97.20  E-value=7.2e-05  Score=67.56  Aligned_cols=28  Identities=39%  Similarity=0.681  Sum_probs=24.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      +.+.||||+||||+|+.||..+|++.+.
T Consensus         6 I~I~GppGSGKgT~ak~La~~~gl~~iS   33 (225)
T d1ckea_           6 ITIDGPSGAGKGTLCKAMAEALQWHLLD   33 (225)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            5678999999999999999999987653

>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=97.19  E-value=6e-05  Score=63.98  Aligned_cols=24  Identities=38%  Similarity=0.355  Sum_probs=20.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +-++|+||||+||||+|+.++...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            457889999999999999987654

>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=97.17  E-value=7.5e-05  Score=65.60  Aligned_cols=28  Identities=21%  Similarity=0.275  Sum_probs=25.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      ++|.||||+||||+++.||.++++..+.
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~~~~~i~   30 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKYGIPQIS   30 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            5788999999999999999999987664

>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=97.13  E-value=9.1e-05  Score=65.81  Aligned_cols=29  Identities=28%  Similarity=0.443  Sum_probs=25.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      -++|.||||+||||.|+.||.++|+..+.
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~g~~~i~   31 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKYGYTHLS   31 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceEc
Confidence            46889999999999999999999876543

>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=97.06  E-value=0.00012  Score=66.31  Aligned_cols=27  Identities=30%  Similarity=0.514  Sum_probs=23.8

Q ss_pred             cccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          230 LLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       230 LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      .+.||||+||||+|+.||.++|++.++
T Consensus         7 aIdGp~GsGKgT~ak~La~~lg~~~is   33 (223)
T d1q3ta_           7 AIDGPASSGKSTVAKIIAKDFGFTYLD   33 (223)
T ss_dssp             EEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            356999999999999999999988654

>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=96.95  E-value=0.001  Score=61.21  Aligned_cols=63  Identities=19%  Similarity=0.303  Sum_probs=42.0

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc-----CC------------cEEEEeccc---cC--------ChHHHHHHHHhccC
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL-----NY------------DVYDLELTT---VQ--------DNSELRSLLIDTSS  277 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l-----~~------------~i~~l~~~~---~~--------~~~~l~~l~~~~~~  277 (504)
                      .+.++++||.++|||++.|++|-..     |.            +-+......   +.        .-.++..++..+..
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            4678999999999999999987432     22            111111111   11        11356777888889


Q ss_pred             CeEEEEecccc
Q 037859          278 KSILVIEDIDC  288 (504)
Q Consensus       278 ~~Il~iDeiD~  288 (504)
                      +++++|||+=.
T Consensus       121 ~sLvliDE~~~  131 (234)
T d1wb9a2         121 YSLVLMDEIGR  131 (234)
T ss_dssp             TEEEEEESCCC
T ss_pred             ccEEeeccccc
Confidence            99999999954

>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=96.90  E-value=0.00025  Score=60.80  Aligned_cols=31  Identities=19%  Similarity=0.181  Sum_probs=24.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      +.+.|+||||||||++.|++++   |+.+..+..
T Consensus         5 i~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~~   38 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKH   38 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEecc
Confidence            6789999999999999999876   555554433

>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=96.89  E-value=0.00013  Score=63.37  Aligned_cols=26  Identities=27%  Similarity=0.328  Sum_probs=22.7

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      |-+++.||||+||||+++.||..++.
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            44789999999999999999998754

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.87  E-value=0.00013  Score=65.12  Aligned_cols=24  Identities=25%  Similarity=0.508  Sum_probs=21.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -++++|+||+||||+|++||.+++
T Consensus         4 li~l~GlpgsGKSTla~~L~~~l~   27 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLTRYLN   27 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            368899999999999999998874

>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=96.86  E-value=0.0027  Score=53.20  Aligned_cols=21  Identities=24%  Similarity=0.325  Sum_probs=18.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|+||||||||+..+++.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999999753

>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=96.84  E-value=0.0025  Score=63.31  Aligned_cols=83  Identities=20%  Similarity=0.356  Sum_probs=56.5

Q ss_pred             ccccccccChhHHHHHHHhh--ccc-ccccCCCCCcHHHHHHHHHHhcC---CcEEEEecc------cc-------CChH
Q 037859          206 ATFDTLAMETKKKEEIKKDL--KKG-YLLYGPPGTGKSTMIAAMANFLN---YDVYDLELT------TV-------QDNS  266 (504)
Q Consensus       206 ~~f~~~~~~~~~k~~i~~~l--~rg-~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~------~~-------~~~~  266 (504)
                      .+++++++++.+.+.+...+  ++| +|+.||+|+||||+..++.++++   .+++.++=.      ..       ....
T Consensus       135 ~~l~~LG~~~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~~~~~q~~v~~~~~~  214 (401)
T d1p9ra_         135 LDLHSLGMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIGQTQVNPRVDM  214 (401)
T ss_dssp             CCGGGSCCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCSSSEEEECBGGGTB
T ss_pred             hhhhhhcccHHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCcccccCCCCeeeecCCcCC
Confidence            45889999998888877666  677 67789999999999999988874   445554311      00       0111


Q ss_pred             HHHHHHHhc--cCCeEEEEecccc
Q 037859          267 ELRSLLIDT--SSKSILVIEDIDC  288 (504)
Q Consensus       267 ~l~~l~~~~--~~~~Il~iDeiD~  288 (504)
                      .....+..+  ..|-||+|.||-.
T Consensus       215 ~~~~~l~~~lR~dPDvi~igEiRd  238 (401)
T d1p9ra_         215 TFARGLRAILRQDPDVVMVGEIRD  238 (401)
T ss_dssp             CHHHHHHHHGGGCCSEEEESCCCS
T ss_pred             CHHHHHHHHHhhcCCEEEecCcCC
Confidence            233333322  4799999999853

>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=96.84  E-value=0.0014  Score=56.34  Aligned_cols=64  Identities=28%  Similarity=0.389  Sum_probs=45.9

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhcCC--------------------cEEEEeccccCChHHHHHH-HHh-ccCCeEE
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFLNY--------------------DVYDLELTTVQDNSELRSL-LID-TSSKSIL  281 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l~~--------------------~i~~l~~~~~~~~~~l~~l-~~~-~~~~~Il  281 (504)
                      +.|  ++|+|+=|+|||++++++++.+|.                    +++-+|+--+.+..++..+ +.+ ....+|+
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~~~V~SPTF~l~~~Y~~~~~~i~H~DlYRl~~~~El~~lg~~e~~~~~~i~  110 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQGNVKSPTYTLVEEYNIAGKMIYHFDLYRLADPEELEFMGIRDYFNTDSIC  110 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCCSCCCCCTTTCEEEEEETTEEEEEEECTTCSCTTHHHHSTHHHHHSSSCEE
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhcccccccCCCceEEEEeeccCCceEEEEEEeccCChhhhhhCCchhHhccCCEE
Confidence            345  778999999999999999998853                    4556677667766666543 222 2457899


Q ss_pred             EEeccccc
Q 037859          282 VIEDIDCS  289 (504)
Q Consensus       282 ~iDeiD~~  289 (504)
                      +||=.+.+
T Consensus       111 ~IEWpe~~  118 (158)
T d1htwa_         111 LIEWSEKG  118 (158)
T ss_dssp             EEESGGGG
T ss_pred             EEECchhh
Confidence            99866553

>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=96.80  E-value=0.00077  Score=56.03  Aligned_cols=34  Identities=32%  Similarity=0.367  Sum_probs=26.7

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcEEEEecc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLELT  260 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  260 (504)
                      +..+|.+|+|+|||.++-.++...+..++.+-..
T Consensus         9 ~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~P~   42 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPS   42 (136)
T ss_dssp             EEEEEECCTTSCTTTHHHHHHHTTTCCEEEEESC
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEcCh
Confidence            4568999999999999877777777777666443

>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=96.64  E-value=0.002  Score=59.87  Aligned_cols=24  Identities=33%  Similarity=0.552  Sum_probs=21.2

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+.+.||+|+|||||++.|++.+.
T Consensus        46 ~vaivG~sGsGKSTLl~ll~gl~~   69 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPRFYD   69 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSSC
T ss_pred             EEEEECCCCCcHHHHHHHHHhcCC
Confidence            388999999999999999988663

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.61  E-value=0.0021  Score=57.89  Aligned_cols=36  Identities=28%  Similarity=0.320  Sum_probs=27.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTT  261 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  261 (504)
                      ++-++|.||+|+||||.+.-||.++   |..+..+.+..
T Consensus         6 ~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt   44 (207)
T d1okkd2           6 GRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDT   44 (207)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEecc
Confidence            3457899999999999999898776   45555555443

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.60  E-value=0.00091  Score=60.36  Aligned_cols=36  Identities=25%  Similarity=0.311  Sum_probs=27.6

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecccc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTV  262 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  262 (504)
                      +-++|.||+|+||||.+.-||.++   +..+..+.+...
T Consensus        11 ~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~   49 (207)
T d1ls1a2          11 NLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQ   49 (207)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccc
Confidence            447889999999999999998776   566665555443

>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=96.56  E-value=0.0021  Score=55.30  Aligned_cols=22  Identities=18%  Similarity=0.320  Sum_probs=19.8

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -++|.|.||+|||||+.++.+.
T Consensus        17 kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          17 KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3889999999999999999864

>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=96.54  E-value=0.00072  Score=61.07  Aligned_cols=33  Identities=27%  Similarity=0.362  Sum_probs=26.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc----CCcEEEEec
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL----NYDVYDLEL  259 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~  259 (504)
                      .-++|+|.||+|||++|++++..+    +.+.+.++.
T Consensus        25 ~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldg   61 (208)
T d1m7ga_          25 LTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDG   61 (208)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcc
Confidence            347899999999999999999765    556666653

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.53  E-value=0.0023  Score=57.91  Aligned_cols=36  Identities=25%  Similarity=0.250  Sum_probs=27.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTT  261 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  261 (504)
                      |.-++|.||+|+||||.+.-||.++   +..+..+.+..
T Consensus        11 p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt   49 (213)
T d1vmaa2          11 PFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADT   49 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecc
Confidence            4558899999999999999998766   45555554443

>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=96.52  E-value=0.001  Score=56.98  Aligned_cols=21  Identities=24%  Similarity=0.438  Sum_probs=19.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|+||+|||||+..+.+.
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            789999999999999999763

>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=96.52  E-value=0.0034  Score=58.21  Aligned_cols=23  Identities=43%  Similarity=0.678  Sum_probs=21.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +-+.||.|+|||||++.|++.+.
T Consensus        43 vaivG~sGsGKSTLl~li~gl~~   65 (251)
T d1jj7a_          43 TALVGPNGSGKSTVAALLQNLYQ   65 (251)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcccC
Confidence            78999999999999999998763

>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=96.50  E-value=0.002  Score=62.03  Aligned_cols=26  Identities=31%  Similarity=0.623  Sum_probs=24.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcC
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      ++++|+.||+|+|||++.+|++++..
T Consensus       166 ~~nili~G~tgSGKTT~l~al~~~i~  191 (323)
T d1g6oa_         166 GKNVIVCGGTGSGKTTYIKSIMEFIP  191 (323)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CCCEEEEeeccccchHHHHHHhhhcc
Confidence            78899999999999999999999874

>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=96.49  E-value=0.00025  Score=61.90  Aligned_cols=26  Identities=35%  Similarity=0.540  Sum_probs=22.6

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      -+++.|+||+||||+++.||..++..
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            36789999999999999999988543

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=96.48  E-value=0.0028  Score=57.10  Aligned_cols=36  Identities=28%  Similarity=0.237  Sum_probs=27.6

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTT  261 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  261 (504)
                      |.-++|.||+|+||||.+.-||..+   |..+..+.+..
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt   47 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDT   47 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeccc
Confidence            4458899999999999999999766   55566555544

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.47  E-value=0.0011  Score=60.01  Aligned_cols=35  Identities=29%  Similarity=0.352  Sum_probs=22.5

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      |.-++|.||+|+||||.+.-||.++   +..+-.+.+.
T Consensus        12 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~D   49 (211)
T d1j8yf2          12 PYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGAD   49 (211)
T ss_dssp             SEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEee
Confidence            4558899999999999999888766   4555554443

>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=96.41  E-value=0.00082  Score=59.31  Aligned_cols=28  Identities=29%  Similarity=0.469  Sum_probs=24.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDV  254 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i  254 (504)
                      |.++|+||+|+|||+|++.|+..+...+
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~   29 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCcce
Confidence            5689999999999999999999875443

>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=96.37  E-value=0.0047  Score=57.25  Aligned_cols=24  Identities=33%  Similarity=0.589  Sum_probs=21.3

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+-|.||+|||||||++.|++.+.
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl~~   66 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRFYD   66 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             EEEEECCCCChHHHHHHHHhcccC
Confidence            378999999999999999998663

>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=96.33  E-value=0.0059  Score=57.04  Aligned_cols=62  Identities=15%  Similarity=0.288  Sum_probs=40.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccccC---------------------ChHHHHHH---HHhccCCeEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTVQ---------------------DNSELRSL---LIDTSSKSIL  281 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~---------------------~~~~l~~l---~~~~~~~~Il  281 (504)
                      ..+|||||||||+++..+|...   |..++++|...--                     +.++..++   +.+.....+|
T Consensus        60 tei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~~~~~~li  139 (268)
T d1xp8a1          60 TEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVRSGAIDVV  139 (268)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCCSEE
T ss_pred             EEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHHHHHHHHHhcCCCcEE
Confidence            6799999999999998886544   5566666654321                     12222222   2223467889


Q ss_pred             EEecccccc
Q 037859          282 VIEDIDCSL  290 (504)
Q Consensus       282 ~iDeiD~~~  290 (504)
                      +||=+.+++
T Consensus       140 IiDSi~al~  148 (268)
T d1xp8a1         140 VVDSVAALT  148 (268)
T ss_dssp             EEECTTTCC
T ss_pred             EEecccccc
Confidence            999888765

>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=96.31  E-value=0.0018  Score=53.13  Aligned_cols=18  Identities=28%  Similarity=0.303  Sum_probs=14.8

Q ss_pred             ccccccCCCCCcHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIA  244 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~  244 (504)
                      +.++|++|||+|||..+-
T Consensus         8 ~~~il~~~tGsGKT~~~~   25 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRFL   25 (140)
T ss_dssp             CEEEECCCTTSSTTTTHH
T ss_pred             CcEEEEcCCCCChhHHHH
Confidence            458999999999996553

>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=96.28  E-value=0.0064  Score=55.91  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=21.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +-+.||+|+|||||++.|++.+.
T Consensus        32 vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          32 IGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCCHHHHHHHHHhcCC
Confidence            78999999999999999998764

>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=96.27  E-value=0.001  Score=59.02  Aligned_cols=28  Identities=29%  Similarity=0.426  Sum_probs=23.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCcE
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYDV  254 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~i  254 (504)
                      |.+.|.||+|+|||++++.++..++..+
T Consensus         1 rpIvl~GPsGsGK~tl~~~L~~~~~~~~   28 (190)
T d1lvga_           1 RPVVLSGPSGAGKSTLLKKLFQEHSSIF   28 (190)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHTTTE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCCce
Confidence            4588999999999999999999876443

>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=96.20  E-value=0.0013  Score=59.50  Aligned_cols=34  Identities=21%  Similarity=0.140  Sum_probs=25.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---------CCcEEEEeccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---------NYDVYDLELTT  261 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~  261 (504)
                      -++|+||||||||+++..+|...         +.+.++++...
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~   78 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEG   78 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSS
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecc
Confidence            38999999999999999887542         34555655443

>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=96.17  E-value=0.0025  Score=58.01  Aligned_cols=25  Identities=20%  Similarity=0.433  Sum_probs=21.1

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      |+|  ++++||||||||+++-.+|...
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            455  8999999999999999887654

>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=96.14  E-value=0.0016  Score=63.71  Aligned_cols=38  Identities=26%  Similarity=0.332  Sum_probs=28.7

Q ss_pred             ccccChhHHHHHHHhhccc-ccccCCCCCcHHHHHHHHH
Q 037859          210 TLAMETKKKEEIKKDLKKG-YLLYGPPGTGKSTMIAAMA  247 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l~rg-~LL~GPpGtGKTsla~aiA  247 (504)
                      .....+.++..+...+.++ .++.||||||||+++..+.
T Consensus       146 ~~~~~~~Q~~A~~~al~~~~~vI~G~pGTGKTt~i~~~l  184 (359)
T d1w36d1         146 VSDEINWQKVAAAVALTRRISVISGGPGTGKTTTVAKLL  184 (359)
T ss_dssp             CTTSCCHHHHHHHHHHTBSEEEEECCTTSTHHHHHHHHH
T ss_pred             CcccccHHHHHHHHHHcCCeEEEEcCCCCCceehHHHHH
Confidence            3345677888888887444 6789999999999886543

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.12  E-value=0.0041  Score=58.00  Aligned_cols=62  Identities=13%  Similarity=0.284  Sum_probs=39.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecccc---------------------CChHHHHHH---HHhccCCeEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTV---------------------QDNSELRSL---LIDTSSKSIL  281 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~---------------------~~~~~l~~l---~~~~~~~~Il  281 (504)
                      .+|+||||||||+++-.+|...   +..+++++...-                     .+.++....   +.....+.+|
T Consensus        57 tei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l~~~~~~~li  136 (263)
T d1u94a1          57 VEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVI  136 (263)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEE
T ss_pred             EEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHHHHHHhCCCHHHEEEecCCCHHHHHHHHHHHHhcCCCCEE
Confidence            7899999999999998776544   455566655431                     112222222   2223567889


Q ss_pred             EEecccccc
Q 037859          282 VIEDIDCSL  290 (504)
Q Consensus       282 ~iDeiD~~~  290 (504)
                      +||=+.+++
T Consensus       137 ViDSi~al~  145 (263)
T d1u94a1         137 VVDSVAALT  145 (263)
T ss_dssp             EEECGGGCC
T ss_pred             EEECccccc
Confidence            999887764

>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=96.09  E-value=0.0039  Score=53.26  Aligned_cols=20  Identities=30%  Similarity=0.700  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|+||+|||+|+..+.+
T Consensus         7 ivlvG~~~vGKTsli~~~~~   26 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTE   26 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999999986

>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=96.09  E-value=0.0069  Score=55.98  Aligned_cols=22  Identities=32%  Similarity=0.339  Sum_probs=19.2

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -.+|+|+||+|||+|+..+|..
T Consensus        31 ~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          31 VGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            3679999999999999888765

>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=96.08  E-value=0.01  Score=53.81  Aligned_cols=62  Identities=19%  Similarity=0.300  Sum_probs=40.6

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhc-----CC------------cEEEEecc---ccCC--------hHHHHHHHHhccCC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFL-----NY------------DVYDLELT---TVQD--------NSELRSLLIDTSSK  278 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l-----~~------------~i~~l~~~---~~~~--------~~~l~~l~~~~~~~  278 (504)
                      +.++|+||...|||++.+++|-..     |.            +-+.....   ++..        -.++..++.....+
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~I~~~~~~~d~~~~~~StF~~el~~~~~il~~~~~~  115 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALILKEATEN  115 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSEEEEECCC------CCSHHHHHHHHHHHHHHHCCTT
T ss_pred             cEEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecceEEEEECCCccccCCccHHHHhHHHHHHHhccCCCC
Confidence            458999999999999999886422     32            11111111   1111        14567778888899


Q ss_pred             eEEEEecccc
Q 037859          279 SILVIEDIDC  288 (504)
Q Consensus       279 ~Il~iDeiD~  288 (504)
                      ++++|||+=.
T Consensus       116 sLvliDE~~~  125 (224)
T d1ewqa2         116 SLVLLDEVGR  125 (224)
T ss_dssp             EEEEEESTTT
T ss_pred             cEEeeccccc
Confidence            9999999954

>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=96.04  E-value=0.0086  Score=50.99  Aligned_cols=21  Identities=24%  Similarity=0.417  Sum_probs=19.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|+||+|||+|+..+.+.
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999999863

>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=96.03  E-value=0.0012  Score=58.03  Aligned_cols=22  Identities=23%  Similarity=0.286  Sum_probs=19.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++++||||+|||+++..+|...
T Consensus        26 ~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          26 TEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEeCCCCCHHHHHHHHHHHH
Confidence            8899999999999999998754

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.96  E-value=0.0038  Score=53.56  Aligned_cols=21  Identities=24%  Similarity=0.415  Sum_probs=18.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|+||+|||+|+..+.+.
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            688999999999999999863

>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=95.94  E-value=0.0036  Score=53.76  Aligned_cols=20  Identities=25%  Similarity=0.549  Sum_probs=18.5

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|.||+|||+|+..+.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68899999999999999985

>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=95.94  E-value=0.0014  Score=57.34  Aligned_cols=23  Identities=22%  Similarity=0.332  Sum_probs=20.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +-+.||+|+||||+|++|+..++
T Consensus        25 IgI~G~~GSGKSTla~~L~~~l~   47 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLANQLSQTLR   47 (198)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            44899999999999999998764

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.93  E-value=0.0021  Score=55.48  Aligned_cols=21  Identities=29%  Similarity=0.668  Sum_probs=18.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|+||||||+|+..+.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999998754

>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=95.91  E-value=0.023  Score=51.32  Aligned_cols=35  Identities=26%  Similarity=0.339  Sum_probs=27.8

Q ss_pred             cccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHH
Q 037859          207 TFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKST  241 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTs  241 (504)
                      +|+++.+++.+.+.+.+.=                 .+.++...|+|||||.
T Consensus        18 sF~~l~L~~~l~~~L~~~g~~~pt~IQ~~aIp~il~g~dvi~~a~TGSGKTl   69 (222)
T d2j0sa1          18 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTA   69 (222)
T ss_dssp             SGGGGCCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHH
T ss_pred             CHHHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCeEEEcCcchhhhh
Confidence            6888888887777665431                 6789999999999996

>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=95.89  E-value=0.002  Score=60.57  Aligned_cols=31  Identities=16%  Similarity=0.392  Sum_probs=21.7

Q ss_pred             cChhHHHHHHHhhcccccccCCCCCcHHHHHH
Q 037859          213 METKKKEEIKKDLKKGYLLYGPPGTGKSTMIA  244 (504)
Q Consensus       213 ~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla~  244 (504)
                      ++|++++.| +.....+|+.||||||||+++-
T Consensus         2 L~~eQ~~av-~~~~~~~lI~g~aGTGKTt~l~   32 (306)
T d1uaaa1           2 LNPGQQQAV-EFVTGPCLVLAGAGSGKTRVIT   32 (306)
T ss_dssp             CCHHHHHHH-HCCSSEEEECCCTTSCHHHHHH
T ss_pred             cCHHHHHHH-hCCCCCEEEEeeCCccHHHHHH
Confidence            456666655 3334448889999999998643

>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=95.88  E-value=0.0056  Score=54.25  Aligned_cols=22  Identities=18%  Similarity=0.383  Sum_probs=20.2

Q ss_pred             ccccccCCCCCcHHHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      |.++|.|+||+|||+|+.++.+
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            5689999999999999999976

>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=95.87  E-value=0.0091  Score=51.11  Aligned_cols=20  Identities=25%  Similarity=0.473  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|.+|+|||+|+..+.+
T Consensus         7 ivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68999999999999999875

>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=95.85  E-value=0.028  Score=49.79  Aligned_cols=36  Identities=22%  Similarity=0.266  Sum_probs=25.2

Q ss_pred             cccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHH
Q 037859          207 TFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTM  242 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsl  242 (504)
                      +|+++.+++...+.+.+.=                 .+.+++.+|+|+|||..
T Consensus         2 sF~~l~L~~~l~~~L~~~g~~~pt~iQ~~aip~il~g~dvi~~a~tGsGKTla   54 (206)
T d1s2ma1           2 TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAA   54 (206)
T ss_dssp             CGGGGCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHHTCCEEEECCTTSCHHHH
T ss_pred             ChHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEecCCcchhhhh
Confidence            4666666666555554331                 67899999999999953

>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=95.84  E-value=0.0053  Score=55.59  Aligned_cols=22  Identities=18%  Similarity=0.146  Sum_probs=19.7

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -++++||||||||+++..+|..
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3889999999999999999864

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.84  E-value=0.0088  Score=55.81  Aligned_cols=62  Identities=18%  Similarity=0.269  Sum_probs=39.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHh---cCCcEEEEeccccC---------------------ChHHHHHH---HHhccCCeEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANF---LNYDVYDLELTTVQ---------------------DNSELRSL---LIDTSSKSIL  281 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~~~---------------------~~~~l~~l---~~~~~~~~Il  281 (504)
                      ..|+||||||||+++..+|..   .+..++++|...--                     ..++...+   +.......+|
T Consensus        63 ~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~~~~~~~li  142 (269)
T d1mo6a1          63 IEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDIV  142 (269)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHTTCEEEE
T ss_pred             EEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHHhcCCCCEE
Confidence            789999999999998665543   35566666654421                     11222222   2223467888


Q ss_pred             EEecccccc
Q 037859          282 VIEDIDCSL  290 (504)
Q Consensus       282 ~iDeiD~~~  290 (504)
                      +||-+.+++
T Consensus       143 IiDSi~al~  151 (269)
T d1mo6a1         143 VIDSVAALV  151 (269)
T ss_dssp             EEECSTTCC
T ss_pred             EEecccccc
Confidence            999888765

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=95.83  E-value=0.013  Score=50.20  Aligned_cols=20  Identities=35%  Similarity=0.614  Sum_probs=18.5

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|+||+|||+|+..+.+
T Consensus        19 I~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          19 ILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEESTTSSHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            89999999999999999865

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.78  E-value=0.0023  Score=58.22  Aligned_cols=31  Identities=19%  Similarity=0.283  Sum_probs=24.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      ++++||||||||+++..+|...   +..+.++++
T Consensus        29 ~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~   62 (242)
T d1tf7a2          29 ILATGATGTGKTLLVSRFVENACANKERAILFAY   62 (242)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEES
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHhccccceeec
Confidence            7899999999999999998775   445555543

>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=95.72  E-value=0.011  Score=49.26  Aligned_cols=21  Identities=29%  Similarity=0.480  Sum_probs=19.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|+||+|||||+..+.+.
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999999874

>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=95.71  E-value=0.003  Score=54.10  Aligned_cols=30  Identities=17%  Similarity=0.299  Sum_probs=24.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      +-+.|+||+|||||+..++.+|   |+.+..+.
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik   36 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   36 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            5589999999999999999877   55666554

>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=95.70  E-value=0.03  Score=50.20  Aligned_cols=37  Identities=19%  Similarity=0.238  Sum_probs=28.1

Q ss_pred             cccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHHH
Q 037859          207 TFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTMI  243 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsla  243 (504)
                      +|+++.+++...+.+.+.=                 .+.++...|+|||||...
T Consensus        13 sF~~l~L~~~l~~~L~~~g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlay   66 (218)
T d2g9na1          13 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATF   66 (218)
T ss_dssp             CGGGSCCCHHHHHHHHHHTCCSCCHHHHHHHHHHHHTCCEEEECCTTSSHHHHH
T ss_pred             CHHHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEEcccchhhhhhh
Confidence            5888888887776664221                 688999999999999743

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.69  E-value=0.0034  Score=54.00  Aligned_cols=20  Identities=25%  Similarity=0.590  Sum_probs=18.7

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|+||+|||+|+..+.+
T Consensus         8 i~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68899999999999999986

>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=95.64  E-value=0.0068  Score=52.18  Aligned_cols=20  Identities=25%  Similarity=0.464  Sum_probs=18.6

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|.+|+|||+|+..+.+
T Consensus         9 v~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999875

>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=95.59  E-value=0.01  Score=50.50  Aligned_cols=21  Identities=24%  Similarity=0.442  Sum_probs=19.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|+||+|||+|+..+.+.
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            688999999999999999863

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.59  E-value=0.0032  Score=56.60  Aligned_cols=33  Identities=27%  Similarity=0.299  Sum_probs=26.4

Q ss_pred             cccccc--cCCCCCcHHHHHHHHHHhc---CCcEEEEe
Q 037859          226 KKGYLL--YGPPGTGKSTMIAAMANFL---NYDVYDLE  258 (504)
Q Consensus       226 ~rg~LL--~GPpGtGKTsla~aiA~~l---~~~i~~l~  258 (504)
                      +||.|+  .||.|+||||+++.|+..|   |+++..+.
T Consensus         1 ~rG~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~~   38 (209)
T d1nn5a_           1 RRGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLR   38 (209)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            477665  4999999999999999977   66666554

>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=95.56  E-value=0.011  Score=53.61  Aligned_cols=31  Identities=32%  Similarity=0.438  Sum_probs=21.4

Q ss_pred             HHHHHHHhh-cccccccCCCCCcHHHHHHHHH
Q 037859          217 KKEEIKKDL-KKGYLLYGPPGTGKSTMIAAMA  247 (504)
Q Consensus       217 ~k~~i~~~l-~rg~LL~GPpGtGKTsla~aiA  247 (504)
                      +++.+-..+ .+.+++.+|+|+|||..+...+
T Consensus        48 Q~~~i~~~l~g~~~~i~apTGsGKT~~~~~~~   79 (237)
T d1gkub1          48 QKMWAKRILRKESFAATAPTGVGKTSFGLAMS   79 (237)
T ss_dssp             HHHHHHHHHTTCCEECCCCBTSCSHHHHHHHH
T ss_pred             HHHHHHHHHCCCCEEEEecCCChHHHHHHHHH
Confidence            344443333 6779999999999997655444

>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=95.53  E-value=0.0025  Score=55.68  Aligned_cols=25  Identities=28%  Similarity=0.510  Sum_probs=21.8

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcC
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +-++|.||+|+|||++++.|+....
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            4477899999999999999998764

>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=95.53  E-value=0.016  Score=53.41  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.5

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -.++|.|.||+||||++.+|.+.
T Consensus        33 l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          33 LTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             cEEEEECCCCCcHHHHHHHHhCC
Confidence            45899999999999999999864

>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=95.53  E-value=0.0032  Score=55.09  Aligned_cols=30  Identities=23%  Similarity=0.318  Sum_probs=25.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      .+|+||.||+|+|||++|.++... |..++.
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            579999999999999999998875 665553

>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=95.48  E-value=0.011  Score=50.93  Aligned_cols=20  Identities=30%  Similarity=0.670  Sum_probs=18.7

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|+||+|||+|+..+.+
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999976

>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=95.43  E-value=0.0035  Score=59.41  Aligned_cols=36  Identities=17%  Similarity=0.446  Sum_probs=25.4

Q ss_pred             cChhHHHHHHHhhcccccccCCCCCcHHHHH-HHHHHh
Q 037859          213 METKKKEEIKKDLKKGYLLYGPPGTGKSTMI-AAMANF  249 (504)
Q Consensus       213 ~~~~~k~~i~~~l~rg~LL~GPpGtGKTsla-~aiA~~  249 (504)
                      +++++++.| +.....+|+.||||||||+++ ..+|..
T Consensus        12 L~~eQ~~~v-~~~~g~~lV~g~aGSGKTt~l~~ri~~l   48 (318)
T d1pjra1          12 LNKEQQEAV-RTTEGPLLIMAGAGSGKTRVLTHRIAYL   48 (318)
T ss_dssp             SCHHHHHHH-HCCSSCEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCHHHHHHH-hCCCCCEEEEecCCccHHHHHHHHHHHH
Confidence            667777744 555556889999999999755 344443

>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=95.36  E-value=0.013  Score=49.90  Aligned_cols=21  Identities=24%  Similarity=0.438  Sum_probs=18.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|.+|+|||+|+..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            689999999999999998753

>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=95.36  E-value=0.011  Score=50.53  Aligned_cols=20  Identities=25%  Similarity=0.464  Sum_probs=18.6

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|.||||||+|+..+.+
T Consensus         8 i~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999999876

>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=95.34  E-value=0.014  Score=51.20  Aligned_cols=22  Identities=18%  Similarity=0.549  Sum_probs=19.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHh
Q 037859          228 GYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~  249 (504)
                      -++|.|+||+|||||+.++.+.
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            4789999999999999999865

>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=95.30  E-value=0.022  Score=48.12  Aligned_cols=21  Identities=29%  Similarity=0.352  Sum_probs=18.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|+||+|||+|+..+...
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999999763

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.29  E-value=0.0075  Score=51.17  Aligned_cols=20  Identities=20%  Similarity=0.488  Sum_probs=18.3

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|.+|+|||+|+..+.+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67889999999999999975

>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=95.23  E-value=0.0069  Score=52.04  Aligned_cols=20  Identities=35%  Similarity=0.718  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|.||+|||+|+..+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999875

>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=95.20  E-value=0.0062  Score=52.15  Aligned_cols=21  Identities=38%  Similarity=0.695  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|++|+|||+|+..+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            578999999999999998753

>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=95.17  E-value=0.0038  Score=55.71  Aligned_cols=25  Identities=24%  Similarity=0.376  Sum_probs=21.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      +-+.||+|+||||++++|+..++..
T Consensus         5 IgI~G~~gSGKSTla~~L~~~l~~~   29 (213)
T d1uj2a_           5 IGVSGGTASGKSSVCAKIVQLLGQN   29 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhchh
Confidence            3478999999999999999998754

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.16  E-value=0.0052  Score=54.89  Aligned_cols=34  Identities=21%  Similarity=0.221  Sum_probs=23.9

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHh----cCCcEEEEec
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANF----LNYDVYDLEL  259 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~----l~~~i~~l~~  259 (504)
                      ++|  ++|+||||+|||+++..+|..    -+..+++++.
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~   63 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTF   63 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccc
Confidence            445  789999999999999765432    2455665544

>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=95.16  E-value=0.0033  Score=54.15  Aligned_cols=20  Identities=25%  Similarity=0.446  Sum_probs=18.7

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|+||+|||||+..+.+
T Consensus        15 IvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          15 ILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEETTSSHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            88999999999999999875

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.06  E-value=0.013  Score=49.97  Aligned_cols=20  Identities=30%  Similarity=0.516  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|.+|+|||+|+..+.+
T Consensus         7 i~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68899999999999999875

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.95  E-value=0.012  Score=50.08  Aligned_cols=20  Identities=25%  Similarity=0.610  Sum_probs=18.2

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|.||+|||+|+..+.+
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            67899999999999999875

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.94  E-value=0.0053  Score=52.37  Aligned_cols=21  Identities=33%  Similarity=0.544  Sum_probs=18.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|+||+|||||+.++.+.
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998763

>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=94.89  E-value=0.0049  Score=53.87  Aligned_cols=29  Identities=34%  Similarity=0.331  Sum_probs=24.3

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      .+|+||.||+|+|||++|.++... |..++
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~-G~~lv   43 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK-NHLFV   43 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT-TCEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCcee
Confidence            579999999999999999988764 65544

>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=94.87  E-value=0.0053  Score=53.29  Aligned_cols=29  Identities=24%  Similarity=0.316  Sum_probs=24.1

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      .+|+||.||+|.|||+++.++... |..++
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~-g~~li   43 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR-GHRLV   43 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEE
Confidence            579999999999999999888776 55443

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.82  E-value=0.011  Score=50.43  Aligned_cols=20  Identities=25%  Similarity=0.544  Sum_probs=18.1

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|++|+|||+|+..+.+
T Consensus         6 i~vvG~~~vGKTsLi~~~~~   25 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVS   25 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999998875

>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=94.82  E-value=0.011  Score=54.82  Aligned_cols=35  Identities=26%  Similarity=0.262  Sum_probs=26.7

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHh----cCCcEEEEecc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANF----LNYDVYDLELT  260 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~----l~~~i~~l~~~  260 (504)
                      ++|  ++|.|+||+|||+++..+|..    .+.++..+++.
T Consensus        33 ~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E   73 (277)
T d1cr2a_          33 RGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLE   73 (277)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESS
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeec
Confidence            455  788999999999998888743    36777776553

>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=94.81  E-value=0.021  Score=50.25  Aligned_cols=18  Identities=33%  Similarity=0.475  Sum_probs=15.8

Q ss_pred             cccccccCCCCCcHHHHH
Q 037859          226 KKGYLLYGPPGTGKSTMI  243 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla  243 (504)
                      .+.+++.+|+|+|||..+
T Consensus        40 ~~~~il~apTGsGKT~~a   57 (202)
T d2p6ra3          40 GKNLLLAMPTAAGKTLLA   57 (202)
T ss_dssp             CSCEEEECSSHHHHHHHH
T ss_pred             CCCEEEEcCCCCchhHHH
Confidence            566899999999999876

>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=94.81  E-value=0.015  Score=52.00  Aligned_cols=25  Identities=20%  Similarity=0.236  Sum_probs=21.6

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++|  ++|+||||+|||+++..+|..+
T Consensus        32 ~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          32 ESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            445  8899999999999999998755

>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=94.77  E-value=0.0054  Score=51.64  Aligned_cols=21  Identities=29%  Similarity=0.452  Sum_probs=19.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|+||||||||+.++.+.
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999764

>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=94.76  E-value=0.0081  Score=54.10  Aligned_cols=30  Identities=30%  Similarity=0.644  Sum_probs=23.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc--CCcEEEEe
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL--NYDVYDLE  258 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l--~~~i~~l~  258 (504)
                      +++.||||+|||||+.++..++  +.....++
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            5689999999999999998765  34444444

>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=94.75  E-value=0.018  Score=51.07  Aligned_cols=49  Identities=18%  Similarity=0.224  Sum_probs=36.5

Q ss_pred             ccccChhHHHHHHHhhc-ccccccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          210 TLAMETKKKEEIKKDLK-KGYLLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       210 ~~~~~~~~k~~i~~~l~-rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      .+.+.+.+++.+-..+. +..++.+|+|+|||.++-+++.+++.++..+-
T Consensus        68 ~~~Lr~yQ~eav~~~~~~~~~ll~~~tG~GKT~~a~~~~~~~~~~~Liv~  117 (206)
T d2fz4a1          68 EISLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAINELSTPTLIVV  117 (206)
T ss_dssp             CCCCCHHHHHHHHHHTTTSEEEEEESSSTTHHHHHHHHHHHSCSCEEEEE
T ss_pred             CCCcCHHHHHHHHHHHhCCCcEEEeCCCCCceehHHhHHHHhcCceeEEE
Confidence            34567777777766552 23567899999999999999999887766553

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=94.74  E-value=0.0057  Score=52.99  Aligned_cols=20  Identities=30%  Similarity=0.551  Sum_probs=18.1

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|+||+|||||+..+..
T Consensus        20 I~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          20 ILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEETTSSHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            78999999999999998754

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.71  E-value=0.008  Score=52.42  Aligned_cols=25  Identities=20%  Similarity=0.398  Sum_probs=22.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +|.++|.||+|+|||+|++.+....
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhC
Confidence            4678999999999999999998765

>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=94.70  E-value=0.0056  Score=53.56  Aligned_cols=28  Identities=39%  Similarity=0.498  Sum_probs=23.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +-++|++|+|||++|+.+. .+|++++..
T Consensus         6 IgitG~~gSGKstva~~l~-~~g~~~~~~   33 (191)
T d1uf9a_           6 IGITGNIGSGKSTVAALLR-SWGYPVLDL   33 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHH-HTTCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEEEc
Confidence            3478999999999999994 578887753

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.60  E-value=0.0054  Score=52.38  Aligned_cols=20  Identities=20%  Similarity=0.423  Sum_probs=18.3

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|.||||||+|+..+.+
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            57899999999999999875

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.59  E-value=0.019  Score=49.08  Aligned_cols=20  Identities=25%  Similarity=0.454  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|++|||||+|+..+++
T Consensus         7 i~lvG~~~vGKTsll~~~~~   26 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQ   26 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67889999999999999886

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.41  E-value=0.018  Score=49.15  Aligned_cols=20  Identities=25%  Similarity=0.614  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|+||+|||+|+..+.+
T Consensus         9 i~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999876

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.36  E-value=0.0099  Score=52.15  Aligned_cols=20  Identities=35%  Similarity=0.670  Sum_probs=18.2

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|+||+|||+|+..+.+
T Consensus         9 ivvvG~~~vGKTsli~~l~~   28 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSD   28 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHhh
Confidence            67899999999999999875

>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=94.28  E-value=0.14  Score=45.13  Aligned_cols=20  Identities=20%  Similarity=0.252  Sum_probs=16.2

Q ss_pred             ccccccCCCCCcHHHHHHHH
Q 037859          227 KGYLLYGPPGTGKSTMIAAM  246 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~ai  246 (504)
                      +.+++..|+|+|||...-..
T Consensus        43 ~d~iv~a~TGsGKT~~~~l~   62 (208)
T d1hv8a1          43 YNIVAQARTGSGKTASFAIP   62 (208)
T ss_dssp             SEEEEECCSSSSHHHHHHHH
T ss_pred             CCeeeechhcccccceeecc
Confidence            46889999999999866543

>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=94.27  E-value=0.0085  Score=53.29  Aligned_cols=28  Identities=29%  Similarity=0.351  Sum_probs=23.9

Q ss_pred             cccCCCCCcHHHHHHHHHHhcCCcEEEEe
Q 037859          230 LLYGPPGTGKSTMIAAMANFLNYDVYDLE  258 (504)
Q Consensus       230 LL~GPpGtGKTsla~aiA~~l~~~i~~l~  258 (504)
                      -++|++|||||++++.+. .+|+++++.|
T Consensus         6 gITG~igSGKStv~~~l~-~~G~~vidaD   33 (205)
T d1jjva_           6 GLTGGIGSGKTTIANLFT-DLGVPLVDAD   33 (205)
T ss_dssp             EEECSTTSCHHHHHHHHH-TTTCCEEEHH
T ss_pred             EEECCCCCCHHHHHHHHH-HCCCeEEEch
Confidence            369999999999999886 6799888754

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.21  E-value=0.04  Score=46.98  Aligned_cols=20  Identities=40%  Similarity=0.605  Sum_probs=18.3

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|++|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68899999999999999875

>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=94.19  E-value=0.0092  Score=53.19  Aligned_cols=28  Identities=43%  Similarity=0.469  Sum_probs=23.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYDL  257 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  257 (504)
                      +-|+|++|+|||++++.+. .+|+++++.
T Consensus         6 IgitG~igSGKStv~~~l~-~~G~~vida   33 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA-DLGINVIDA   33 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH-HTTCEEEEH
T ss_pred             EEEECCCcCCHHHHHHHHH-HCCCcEEEc
Confidence            3479999999999999886 679887764

>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=94.15  E-value=0.0092  Score=53.31  Aligned_cols=23  Identities=35%  Similarity=0.673  Sum_probs=20.7

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      ++|.||+|+|||+|++.+.....
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhhCC
Confidence            67899999999999999998764

>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=94.02  E-value=0.0084  Score=51.30  Aligned_cols=21  Identities=33%  Similarity=0.577  Sum_probs=18.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +.|.|+||+|||||+.++.+.
T Consensus         3 V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           3 VLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            678999999999999999753

>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=93.94  E-value=0.0095  Score=52.94  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=19.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +.+.|++|+||||+++.|+..|
T Consensus         5 IviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5577999999999999999877

>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=93.92  E-value=0.0071  Score=51.74  Aligned_cols=20  Identities=20%  Similarity=0.516  Sum_probs=18.5

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|+||+|||||+.++.+
T Consensus        16 I~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          16 LVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             EEEEEETTSSHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999865

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=93.89  E-value=0.0079  Score=53.59  Aligned_cols=23  Identities=30%  Similarity=0.704  Sum_probs=20.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +.|.||.|+|||||.+.|++.+.
T Consensus        30 ~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          30 VNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCChHHHHHHHHhcccc
Confidence            67999999999999999998763

>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=93.80  E-value=0.011  Score=50.07  Aligned_cols=20  Identities=30%  Similarity=0.484  Sum_probs=18.5

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|+||+|||+|+..+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68999999999999999885

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.77  E-value=0.0087  Score=51.57  Aligned_cols=23  Identities=17%  Similarity=0.303  Sum_probs=19.9

Q ss_pred             ccccccCCCCCcHHHHHHHHHHh
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +-+++.|++|+|||+|+..+.+.
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            44788999999999999998864

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=93.73  E-value=0.0079  Score=51.85  Aligned_cols=21  Identities=29%  Similarity=0.436  Sum_probs=19.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|+||+|||||+.+|.+.
T Consensus         3 I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           3 IIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999999763

>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=93.65  E-value=0.0097  Score=52.03  Aligned_cols=28  Identities=25%  Similarity=0.336  Sum_probs=23.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVYD  256 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  256 (504)
                      +.+.|+.|+||||+++.|+.+++...+.
T Consensus        12 I~ieG~~GsGKTTl~~~L~~~l~~~~~~   39 (197)
T d2vp4a1          12 VLIEGNIGSGKTTYLNHFEKYKNDICLL   39 (197)
T ss_dssp             EEEECSTTSCHHHHHHTTGGGTTTEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEE
Confidence            5678999999999999999999765443

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.57  E-value=0.021  Score=50.22  Aligned_cols=31  Identities=23%  Similarity=0.403  Sum_probs=25.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      +.+.|+.|+||||+++.|+..+   |+++..+..
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            4568999999999999999876   667766543

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.55  E-value=0.0072  Score=51.96  Aligned_cols=20  Identities=30%  Similarity=0.602  Sum_probs=8.2

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|.||||||+|+.++.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67889999999999998875

>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=93.53  E-value=0.014  Score=49.85  Aligned_cols=21  Identities=24%  Similarity=0.555  Sum_probs=18.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|++|||||+|+..+.+.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            688999999999999998863

>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=93.51  E-value=0.031  Score=52.39  Aligned_cols=32  Identities=25%  Similarity=0.356  Sum_probs=24.2

Q ss_pred             ccCCCCCcHHHHHHHHHHhc------CCcEEEEecccc
Q 037859          231 LYGPPGTGKSTMIAAMANFL------NYDVYDLELTTV  262 (504)
Q Consensus       231 L~GPpGtGKTsla~aiA~~l------~~~i~~l~~~~~  262 (504)
                      |.|+||||||||+..|...+      +..+..+++.++
T Consensus        32 i~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Ddf   69 (286)
T d1odfa_          32 FSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   69 (286)
T ss_dssp             EECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             eECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCC
Confidence            68999999999999887665      345666665554

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.42  E-value=0.012  Score=50.93  Aligned_cols=20  Identities=30%  Similarity=0.562  Sum_probs=18.3

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|+||+|||+|+..+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            67899999999999999875

>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=93.40  E-value=0.011  Score=53.86  Aligned_cols=24  Identities=33%  Similarity=0.549  Sum_probs=21.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +-|.||+|||||||.+.|++....
T Consensus        34 ~~iiG~sGsGKSTLl~~i~gl~~p   57 (230)
T d1l2ta_          34 VSIMGPSGSGKSTMLNIIGCLDKP   57 (230)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCCcchhhHhccCCCCC
Confidence            778999999999999999987643

>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=93.37  E-value=0.028  Score=52.65  Aligned_cols=32  Identities=22%  Similarity=0.451  Sum_probs=26.4

Q ss_pred             HHHHHhh---ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          219 EEIKKDL---KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       219 ~~i~~~l---~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      -++++.+   .||  .++.||+|||||+|+..+|+..
T Consensus        31 ~r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          31 ARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             HHHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             ceeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            3667776   555  8999999999999999998755

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.34  E-value=0.015  Score=49.86  Aligned_cols=20  Identities=30%  Similarity=0.634  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|+||+|||||+..+.+
T Consensus         7 i~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68899999999999999876

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.29  E-value=0.014  Score=53.45  Aligned_cols=23  Identities=35%  Similarity=0.700  Sum_probs=20.2

Q ss_pred             cccCCCCCcHHHHHHHHHHhcCC
Q 037859          230 LLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       230 LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      -|.||.|||||||.+.|++.+.-
T Consensus        28 ~liGpnGaGKSTll~~i~Gl~~p   50 (240)
T d2onka1          28 VLLGPTGAGKSVFLELIAGIVKP   50 (240)
T ss_dssp             EEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEECCCCChHHHHHHHHHcCCCC
Confidence            37899999999999999997743

>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=93.28  E-value=0.014  Score=53.20  Aligned_cols=24  Identities=33%  Similarity=0.631  Sum_probs=21.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +-|.||.|||||||.+.|++.+..
T Consensus        29 ~~liGpsGsGKSTLl~~i~Gl~~p   52 (232)
T d2awna2          29 VVFVGPSGCGKSTLLRMIAGLETI   52 (232)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEECCCCChHHHHHHHHhcCCCC
Confidence            678999999999999999987643

>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=93.27  E-value=0.025  Score=50.57  Aligned_cols=34  Identities=26%  Similarity=0.310  Sum_probs=27.7

Q ss_pred             cc--ccccCCCCCcHHHHHHHHHHhcCCcEEEEecc
Q 037859          227 KG--YLLYGPPGTGKSTMIAAMANFLNYDVYDLELT  260 (504)
Q Consensus       227 rg--~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  260 (504)
                      ||  +.|.|+-|+||||+++.++..|....+.+...
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~~~~~~~~p   37 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQPNCKLLKFP   37 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTTSEEEEESS
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHhCCEEEEEC
Confidence            56  45689999999999999999998777666543

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.19  E-value=0.017  Score=50.19  Aligned_cols=20  Identities=25%  Similarity=0.494  Sum_probs=18.5

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|.+|+|||+|+..+.+
T Consensus        12 i~lvG~~~vGKTsLi~r~~~   31 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAN   31 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhh
Confidence            78999999999999999876

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.18  E-value=0.017  Score=49.34  Aligned_cols=20  Identities=25%  Similarity=0.630  Sum_probs=18.2

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|+||+|||+|+..+.+
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            67899999999999999875

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.16  E-value=0.017  Score=49.94  Aligned_cols=20  Identities=25%  Similarity=0.645  Sum_probs=18.5

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|.||||||||+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68999999999999999876

>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=93.08  E-value=0.021  Score=54.56  Aligned_cols=33  Identities=33%  Similarity=0.522  Sum_probs=24.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCc--EEEEeccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYD--VYDLELTT  261 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~--i~~l~~~~  261 (504)
                      +=+.||||+|||||+.+++.++   +..  ++.+|.++
T Consensus        54 igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss   91 (323)
T d2qm8a1          54 VGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSS   91 (323)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGG
T ss_pred             EeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeeccccc
Confidence            4479999999999999999764   333  45555544

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.07  E-value=0.021  Score=51.67  Aligned_cols=36  Identities=36%  Similarity=0.437  Sum_probs=26.3

Q ss_pred             HHHHHhh-cccccccCCCCCcHHHHHHHHHHhcCCcE
Q 037859          219 EEIKKDL-KKGYLLYGPPGTGKSTMIAAMANFLNYDV  254 (504)
Q Consensus       219 ~~i~~~l-~rg~LL~GPpGtGKTsla~aiA~~l~~~i  254 (504)
                      +.+.+.+ .+-..|.|++|+|||||+.++........
T Consensus        87 ~~L~~~l~~kt~~~~G~SGVGKSTLiN~L~~~~~~~T  123 (225)
T d1u0la2          87 EELKEYLKGKISTMAGLSGVGKSSLLNAINPGLKLRV  123 (225)
T ss_dssp             HHHHHHHSSSEEEEECSTTSSHHHHHHHHSTTCCCC-
T ss_pred             hhHHHHhcCCeEEEECCCCCCHHHHHHhhcchhhhhc
Confidence            3344444 45578999999999999999987665443

>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=93.05  E-value=0.014  Score=49.11  Aligned_cols=20  Identities=35%  Similarity=0.707  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|+||+|||||+.++.+
T Consensus         4 I~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67999999999999999975

>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=93.01  E-value=0.016  Score=53.00  Aligned_cols=24  Identities=33%  Similarity=0.605  Sum_probs=21.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +-|.||.|||||||++.|++.+.-
T Consensus        35 ~~liGpsGaGKSTLl~~i~Gl~~p   58 (239)
T d1v43a3          35 LVLLGPSGCGKTTTLRMIAGLEEP   58 (239)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEECCCCChHHHHHHHHHcCCCC
Confidence            678999999999999999997743

>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=93.01  E-value=0.026  Score=53.52  Aligned_cols=34  Identities=21%  Similarity=0.201  Sum_probs=26.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC-----CcEEEEecccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN-----YDVYDLELTTV  262 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~-----~~i~~l~~~~~  262 (504)
                      +-+.||+|+||||+|+.|+..+.     ..+..+.+.+.
T Consensus        83 IGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F  121 (308)
T d1sq5a_          83 ISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             EEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeee
Confidence            55789999999999999998874     44555655554

>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=92.99  E-value=0.02  Score=54.91  Aligned_cols=34  Identities=29%  Similarity=0.500  Sum_probs=24.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCc--EEEEecccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYD--VYDLELTTV  262 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~--i~~l~~~~~  262 (504)
                      +=+.||||+|||||+.+++.++   |..  ++.+|.++-
T Consensus        57 IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~   95 (327)
T d2p67a1          57 LGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSP   95 (327)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC--
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCcee
Confidence            5579999999999999998765   333  455565543

>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=92.92  E-value=0.013  Score=53.21  Aligned_cols=24  Identities=29%  Similarity=0.688  Sum_probs=21.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +-|.||.|||||||++.|++.+..
T Consensus        29 ~~liGpsGaGKSTll~~l~Gl~~p   52 (229)
T d3d31a2          29 FVILGPTGAGKTLFLELIAGFHVP   52 (229)
T ss_dssp             EEEECCCTHHHHHHHHHHHTSSCC
T ss_pred             EEEECCCCCcHHHHHHHHhcCcCC
Confidence            779999999999999999997643

>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=92.91  E-value=0.017  Score=52.87  Aligned_cols=23  Identities=35%  Similarity=0.687  Sum_probs=20.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +-|.||.|||||||+++|++...
T Consensus        32 ~~liG~sGaGKSTll~~i~gl~~   54 (240)
T d1g2912          32 MILLGPSGCGKTTTLRMIAGLEE   54 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCChHHHHHHHHhcCCC
Confidence            66899999999999999998663

>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=92.87  E-value=0.02  Score=48.32  Aligned_cols=20  Identities=15%  Similarity=0.366  Sum_probs=18.5

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|++|+|||+|+..+.+
T Consensus         5 v~liG~~~vGKTsLl~~~~~   24 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCA   24 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68999999999999999985

>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=92.86  E-value=0.014  Score=50.90  Aligned_cols=20  Identities=35%  Similarity=0.536  Sum_probs=18.7

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +.|.|+||+|||||+.+|.+
T Consensus        26 I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          26 IALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHhcC
Confidence            88999999999999999975

>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=92.84  E-value=0.015  Score=54.58  Aligned_cols=23  Identities=22%  Similarity=0.495  Sum_probs=21.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +-|.||.|+|||||++.|++.+.
T Consensus        65 vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          65 LAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCChHHHHHHHHhCCCc
Confidence            77999999999999999999773

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.64  E-value=0.022  Score=48.64  Aligned_cols=20  Identities=30%  Similarity=0.582  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|+||+|||+|+..+.+
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999998876

>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=92.60  E-value=0.015  Score=53.29  Aligned_cols=24  Identities=33%  Similarity=0.486  Sum_probs=21.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +-|.||+|||||||++.|++....
T Consensus        34 ~~iiG~sGsGKSTLl~~i~Gl~~p   57 (240)
T d3dhwc1          34 YGVIGASGAGKSTLIRCVNLLERP   57 (240)
T ss_dssp             EEEEESTTSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCCHHHHHHHHcCCccc
Confidence            678999999999999999987643

>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=92.57  E-value=0.034  Score=51.42  Aligned_cols=36  Identities=22%  Similarity=0.208  Sum_probs=30.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTT  261 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  261 (504)
                      ||-+++.|.-|+||||++.++|..+   |..+..+++.-
T Consensus         8 p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~Dp   46 (296)
T d1ihua1           8 PPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDP   46 (296)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCT
T ss_pred             CeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCCC
Confidence            7888899999999999999998876   78888777664

>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=92.57  E-value=0.02  Score=48.54  Aligned_cols=21  Identities=19%  Similarity=0.320  Sum_probs=18.8

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -++|.|++|+|||+|+..+.+
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378899999999999999876

>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=92.56  E-value=0.028  Score=50.57  Aligned_cols=30  Identities=17%  Similarity=0.118  Sum_probs=25.2

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      |+=+.+-|+-|+||||+++.|+.+++...+
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            345778999999999999999999975544

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.39  E-value=0.022  Score=48.87  Aligned_cols=21  Identities=29%  Similarity=0.556  Sum_probs=19.2

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +.|.|.||+|||||+.++.+.
T Consensus         8 I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           8 VAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999864

>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=92.36  E-value=0.019  Score=52.55  Aligned_cols=22  Identities=36%  Similarity=0.697  Sum_probs=20.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +-+.||.|+|||||++.|++.+
T Consensus        31 vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          31 IAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHHHhh
Confidence            7789999999999999999866

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=92.29  E-value=0.024  Score=51.17  Aligned_cols=27  Identities=22%  Similarity=0.229  Sum_probs=23.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCCcEE
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNYDVY  255 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~~i~  255 (504)
                      +-|+|+.||||||+|+.++..+|+.++
T Consensus         4 IgiTG~igSGKsTva~~l~e~~g~~~i   30 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNYSAVKY   30 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCeEE
Confidence            458999999999999999998876544

>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=92.16  E-value=0.015  Score=53.27  Aligned_cols=22  Identities=32%  Similarity=0.683  Sum_probs=20.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +-|.||.|||||||++.|++..
T Consensus        34 ~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          34 FGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHHcCc
Confidence            7789999999999999999865

>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=91.88  E-value=0.022  Score=48.91  Aligned_cols=24  Identities=42%  Similarity=0.407  Sum_probs=20.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -.+|+||.|+|||++..||.-.++
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Confidence            468899999999999999987663

>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=91.87  E-value=0.023  Score=52.55  Aligned_cols=23  Identities=26%  Similarity=0.475  Sum_probs=20.6

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      +-|.||.|+|||+|+++|++.+.
T Consensus        31 ~~iiG~sGsGKSTLl~~i~Gl~~   53 (258)
T d1b0ua_          31 ISIIGSSGSGKSTFLRCINFLEK   53 (258)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCcHHHHHHHHHcCcc
Confidence            66899999999999999998664

>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=91.74  E-value=0.19  Score=46.45  Aligned_cols=22  Identities=32%  Similarity=0.573  Sum_probs=20.0

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      .++.|++|||||+|+..+|+..
T Consensus        71 ~~If~~~g~GKt~l~~~i~~~~   92 (276)
T d2jdid3          71 IGLFGGAGVGKTVLIMELINNV   92 (276)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEeeCCCCCCHHHHHHHHHHHH
Confidence            8999999999999999998763

>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=91.53  E-value=0.035  Score=47.79  Aligned_cols=21  Identities=14%  Similarity=0.339  Sum_probs=18.9

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|.+|+|||+|+..+...
T Consensus         8 ivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           8 CVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998763

>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=91.52  E-value=0.012  Score=49.35  Aligned_cols=21  Identities=33%  Similarity=0.604  Sum_probs=19.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +.|.|+||+|||||+.++.+.
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            578999999999999999875

>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=91.49  E-value=0.032  Score=47.52  Aligned_cols=20  Identities=30%  Similarity=0.582  Sum_probs=18.5

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +.|.|.||+|||||+.++.+
T Consensus         8 I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67899999999999999975

>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=91.44  E-value=0.026  Score=50.63  Aligned_cols=25  Identities=20%  Similarity=0.271  Sum_probs=22.1

Q ss_pred             cccccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      =+.+.||-|+||||+++.|+..+..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~l~~   28 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQLCED   28 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhc
Confidence            3678899999999999999999854

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.39  E-value=0.017  Score=49.37  Aligned_cols=20  Identities=35%  Similarity=0.561  Sum_probs=17.3

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +++.|++|+|||+|+.++.+
T Consensus         6 i~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC-
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999998764

>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=91.27  E-value=0.034  Score=47.88  Aligned_cols=20  Identities=20%  Similarity=0.471  Sum_probs=18.5

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|.+|+|||+|+..+.+
T Consensus         5 ivliG~~~vGKTsli~r~~~   24 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAK   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68999999999999998876

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=91.12  E-value=0.037  Score=47.53  Aligned_cols=21  Identities=38%  Similarity=0.561  Sum_probs=18.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +.+.|+||+|||||+.++.+.
T Consensus        11 V~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          11 VAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
Confidence            678899999999999999863

>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=90.76  E-value=0.041  Score=47.77  Aligned_cols=21  Identities=14%  Similarity=0.339  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|++|+|||+|+..+...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988753

>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=90.74  E-value=0.034  Score=50.67  Aligned_cols=24  Identities=29%  Similarity=0.635  Sum_probs=21.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +-|.||.|+|||||.++|++.+..
T Consensus        31 ~glvG~nGaGKSTLl~~l~G~~~p   54 (238)
T d1vpla_          31 FGLIGPNGAGKTTTLRIISTLIKP   54 (238)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCC
Confidence            568999999999999999998743

>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=90.73  E-value=0.034  Score=50.74  Aligned_cols=28  Identities=32%  Similarity=0.600  Sum_probs=23.6

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      ++|  +-|.||.|+|||||+++|++.+...
T Consensus        30 ~~Gei~~liGpnGaGKSTl~~~i~Gl~~p~   59 (240)
T d1ji0a_          30 PRGQIVTLIGANGAGKTTTLSAIAGLVRAQ   59 (240)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            445  6689999999999999999987543

>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=90.67  E-value=0.059  Score=47.11  Aligned_cols=33  Identities=21%  Similarity=0.336  Sum_probs=26.6

Q ss_pred             ccccccCC-CCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          227 KGYLLYGP-PGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       227 rg~LL~GP-pGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      +-|++.|- +|+|||+++..||..|   |+.+..++.
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            45788898 6999999999998766   777777664

>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=90.37  E-value=0.074  Score=52.10  Aligned_cols=35  Identities=23%  Similarity=0.307  Sum_probs=27.7

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEecc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELT  260 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  260 (504)
                      .+.+++.|++|+|||++++.+...+   +.+++.+|..
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~k   87 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPN   87 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEET
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            5789999999999999987765433   6777777754

>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=90.35  E-value=0.025  Score=48.20  Aligned_cols=21  Identities=24%  Similarity=0.428  Sum_probs=18.7

Q ss_pred             cccccCCCCCcHHHHHHHHHH
Q 037859          228 GYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~  248 (504)
                      -+.|.|+|++|||||+.+|.+
T Consensus        18 ~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          18 EVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             EEEEEECTTSSHHHHHTTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999999854

>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=90.32  E-value=0.038  Score=47.49  Aligned_cols=20  Identities=35%  Similarity=0.552  Sum_probs=17.8

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +-|.|+||+|||||+.++.+
T Consensus         4 VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSEE
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            56899999999999999864

>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=90.21  E-value=0.27  Score=45.08  Aligned_cols=62  Identities=18%  Similarity=0.223  Sum_probs=37.8

Q ss_pred             cChhHH---HHHHHhh----cccccccCCCCCcHHHHHHHHHHh---cCCcEEEEeccccCC---hHHHHHHHHh
Q 037859          213 METKKK---EEIKKDL----KKGYLLYGPPGTGKSTMIAAMANF---LNYDVYDLELTTVQD---NSELRSLLID  274 (504)
Q Consensus       213 ~~~~~k---~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~~~~---~~~l~~l~~~  274 (504)
                      +.++++   ++|..|+    +-.-||+|..|+|||-++-..+..   -|+.+..+-...+-.   ...+++.|..
T Consensus        84 LT~~Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~Pt~~La~Qh~~~~~~~f~~  158 (264)
T d1gm5a3          84 LTNAQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTSILAIQHYRRTVESFSK  158 (264)
T ss_dssp             CCHHHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECSCHHHHHHHHHHHHHHHTC
T ss_pred             CCchHHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHHHHhcccceeEEeehHhhhHHHHHHHHHhhhh
Confidence            344454   4555666    345699999999999987765543   377776665444322   2334455543

>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=89.99  E-value=0.055  Score=48.95  Aligned_cols=25  Identities=48%  Similarity=0.796  Sum_probs=21.3

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhc
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      ++|  +-|.||.|+|||||.++|++..
T Consensus        23 ~~Gei~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          23 RAGEILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             ETTCEEECBCCTTSSHHHHHHHHHTSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            445  6789999999999999999854

>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=89.71  E-value=0.12  Score=47.22  Aligned_cols=36  Identities=36%  Similarity=0.386  Sum_probs=28.8

Q ss_pred             cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccc
Q 037859          226 KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTT  261 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  261 (504)
                      +|-+.+.|.-|+||||++..+|..+   |.++..+|+.-
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~Dp   58 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDP   58 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCC
Confidence            3447788999999999988887655   78888888774

>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=89.46  E-value=0.046  Score=46.75  Aligned_cols=20  Identities=45%  Similarity=0.644  Sum_probs=18.1

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +.|.|.||+|||||+.++.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67899999999999999964

>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=89.44  E-value=0.057  Score=49.63  Aligned_cols=27  Identities=48%  Similarity=0.869  Sum_probs=22.9

Q ss_pred             ccc--ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          226 KKG--YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       226 ~rg--~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      ++|  +-|.||.|+|||||+++|++.+..
T Consensus        28 ~~Gei~~liG~nGaGKSTLl~~i~Gl~~p   56 (254)
T d1g6ha_          28 NKGDVTLIIGPNGSGKSTLINVITGFLKA   56 (254)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHCCCcC
Confidence            445  678999999999999999997743

>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=89.37  E-value=0.14  Score=44.12  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=18.8

Q ss_pred             hcccccccCCCCCcHHHHHHHHHH
Q 037859          225 LKKGYLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       225 l~rg~LL~GPpGtGKTsla~aiA~  248 (504)
                      ..+..|+++|+|+|||.++..++.
T Consensus        22 ~~~n~lv~~pTGsGKT~i~~~~~~   45 (200)
T d1wp9a1          22 KETNCLIVLPTGLGKTLIAMMIAE   45 (200)
T ss_dssp             GGSCEEEECCTTSCHHHHHHHHHH
T ss_pred             hcCCeEEEeCCCCcHHHHHHHHHH
Confidence            366789999999999986665553

>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=89.28  E-value=0.062  Score=50.22  Aligned_cols=34  Identities=18%  Similarity=0.290  Sum_probs=22.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc---CCcEEEEecccc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTTV  262 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  262 (504)
                      +-+.|++|+|||++++++++.+   +.+...++..+.
T Consensus         7 IgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsf   43 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF   43 (288)
T ss_dssp             EEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCC
Confidence            4578999999999999998876   445445544443

>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=88.39  E-value=0.094  Score=44.88  Aligned_cols=21  Identities=24%  Similarity=0.298  Sum_probs=18.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|++|+|||+|+..+.+.
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999999988764

>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=88.30  E-value=0.026  Score=51.20  Aligned_cols=27  Identities=30%  Similarity=0.486  Sum_probs=19.4

Q ss_pred             ccccccCCCCCcHHHHHHHHHHhcCCc
Q 037859          227 KGYLLYGPPGTGKSTMIAAMANFLNYD  253 (504)
Q Consensus       227 rg~LL~GPpGtGKTsla~aiA~~l~~~  253 (504)
                      +..+|.|++|+|||||+.++.......
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~~~~  124 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPELGLR  124 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-----
T ss_pred             ceEEEECCCCccHHHHHHhhccHhHhh
Confidence            446788999999999999997765433

>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=88.12  E-value=0.086  Score=45.43  Aligned_cols=18  Identities=44%  Similarity=0.665  Sum_probs=17.0

Q ss_pred             ccccCCCCCcHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAM  246 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~ai  246 (504)
                      ++|.|.+|+|||+|+..+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            689999999999999998

>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=87.23  E-value=0.089  Score=48.77  Aligned_cols=23  Identities=35%  Similarity=0.611  Sum_probs=20.3

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLN  251 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~  251 (504)
                      -+|+||-|+|||++..||+-.++
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~lg   49 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWVFG   49 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTSC
T ss_pred             EEEECCCCCcHHHHHHHHHHHhC
Confidence            47899999999999999987665

>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=86.98  E-value=0.77  Score=37.57  Aligned_cols=60  Identities=13%  Similarity=0.347  Sum_probs=38.2

Q ss_pred             cccCCCCCcHHH-HHHHHHH--hcCCcEEEEeccc--------------------cCChHHHHHHHHhc---cCCeEEEE
Q 037859          230 LLYGPPGTGKST-MIAAMAN--FLNYDVYDLELTT--------------------VQDNSELRSLLIDT---SSKSILVI  283 (504)
Q Consensus       230 LL~GPpGtGKTs-la~aiA~--~l~~~i~~l~~~~--------------------~~~~~~l~~l~~~~---~~~~Il~i  283 (504)
                      +++||-.+|||+ |++.+-+  ..|.++..++...                    +....++...+...   ....+|+|
T Consensus         6 ~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ikp~~D~R~~~~i~s~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvI~I   85 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKVIGI   85 (139)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCEEEE
T ss_pred             EEEccccCHHHHHHHHHHHHHHHCCCcEEEEEEcccccccceEEcccCceeeeEEeccchhhHHHHHhhccccCcCEEEe
Confidence            679999999999 7776633  3477766654431                    12223444444333   24579999


Q ss_pred             eccccc
Q 037859          284 EDIDCS  289 (504)
Q Consensus       284 DeiD~~  289 (504)
                      ||+.-+
T Consensus        86 DE~QFf   91 (139)
T d2b8ta1          86 DEVQFF   91 (139)
T ss_dssp             CSGGGS
T ss_pred             chhhhc
Confidence            999864

>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=86.55  E-value=0.29  Score=44.07  Aligned_cols=41  Identities=22%  Similarity=0.229  Sum_probs=28.3

Q ss_pred             HHHHHhh----cccccccCCCCCcHHHHHHHHHHhc---CCcEEEEec
Q 037859          219 EEIKKDL----KKGYLLYGPPGTGKSTMIAAMANFL---NYDVYDLEL  259 (504)
Q Consensus       219 ~~i~~~l----~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  259 (504)
                      ++|.+++    +...||+|.+|+|||.++-..+...   |..+..+-.
T Consensus        65 ~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~P  112 (233)
T d2eyqa3          65 NAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVP  112 (233)
T ss_dssp             HHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECS
T ss_pred             HHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEcc
Confidence            4566666    3357999999999999877555432   666665543

>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=86.23  E-value=0.13  Score=49.13  Aligned_cols=24  Identities=38%  Similarity=0.253  Sum_probs=21.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +.|-|+-|+||||+++.++++++.
T Consensus         9 I~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           9 IYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEECCccCCHHHHHHHHHHHhcc
Confidence            567899999999999999999854

>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=86.16  E-value=0.13  Score=45.77  Aligned_cols=20  Identities=40%  Similarity=0.574  Sum_probs=18.0

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      +||.|++|+|||+|++.+..
T Consensus         9 illlG~~~vGKTsll~~~~~   28 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            78999999999999998853

>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=85.90  E-value=0.22  Score=43.79  Aligned_cols=17  Identities=24%  Similarity=0.337  Sum_probs=15.1

Q ss_pred             cccccccCCCCCcHHHH
Q 037859          226 KKGYLLYGPPGTGKSTM  242 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTsl  242 (504)
                      ++.+++..|+|||||..
T Consensus        38 g~dvl~~A~TGsGKTla   54 (207)
T d1t6na_          38 GMDVLCQAKSGMGKTAV   54 (207)
T ss_dssp             TCCEEEECCTTSCHHHH
T ss_pred             CCCeEEEeccccccccc
Confidence            78899999999999863

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {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: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.65  E-value=0.21  Score=43.86  Aligned_cols=16  Identities=38%  Similarity=0.439  Sum_probs=14.8

Q ss_pred             cccccccCCCCCcHHH
Q 037859          226 KKGYLLYGPPGTGKST  241 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTs  241 (504)
                      ++.+++..|+|||||.
T Consensus        40 g~dvl~~a~TGsGKTl   55 (206)
T d1veca_          40 GRDILARAKNGTGKSG   55 (206)
T ss_dssp             TCCEEEECCSSSTTHH
T ss_pred             CCCEEeeccCcccccc
Confidence            7789999999999995

>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=85.65  E-value=0.25  Score=43.61  Aligned_cols=36  Identities=19%  Similarity=0.249  Sum_probs=27.0

Q ss_pred             cccccccChhHHHHHHHhh-----------------cccccccCCCCCcHHHH
Q 037859          207 TFDTLAMETKKKEEIKKDL-----------------KKGYLLYGPPGTGKSTM  242 (504)
Q Consensus       207 ~f~~~~~~~~~k~~i~~~l-----------------~rg~LL~GPpGtGKTsl  242 (504)
                      +|+++.+++...+.+.+.=                 .+.+++..|+|||||..
T Consensus        11 sF~~l~l~~~l~~~L~~~g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKT~a   63 (212)
T d1qdea_          11 KFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGT   63 (212)
T ss_dssp             CGGGGTCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHH
T ss_pred             ChhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEeecccccchhhh
Confidence            4777777777766664321                 67799999999999974

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=85.42  E-value=0.58  Score=43.23  Aligned_cols=21  Identities=24%  Similarity=0.256  Sum_probs=18.4

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      +++.|++|+|||+++..++..
T Consensus        71 ~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          71 ELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             CEEEESTTSSHHHHHHHHHHH
T ss_pred             EEeecCCCCChHHHHHHHHHh
Confidence            899999999999998877643

>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=85.17  E-value=0.23  Score=45.11  Aligned_cols=34  Identities=24%  Similarity=0.310  Sum_probs=26.9

Q ss_pred             cccccCCCCCcHHHHHHHHHHhc---CCcEEEEeccc
Q 037859          228 GYLLYGPPGTGKSTMIAAMANFL---NYDVYDLELTT  261 (504)
Q Consensus       228 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  261 (504)
                      -+-++|.=||||||++-.+|..|   |.++..+|+.-
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D~   39 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDP   39 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECT
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            35568999999999998887765   77887777754

>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=85.15  E-value=0.15  Score=43.53  Aligned_cols=21  Identities=43%  Similarity=0.559  Sum_probs=18.8

Q ss_pred             ccccCCCCCcHHHHHHHHHHh
Q 037859          229 YLLYGPPGTGKSTMIAAMANF  249 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~  249 (504)
                      ++|.|.+|+|||+|+..+...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999999654

>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=84.88  E-value=0.2  Score=43.68  Aligned_cols=16  Identities=25%  Similarity=0.343  Sum_probs=14.8

Q ss_pred             cccccccCCCCCcHHH
Q 037859          226 KKGYLLYGPPGTGKST  241 (504)
Q Consensus       226 ~rg~LL~GPpGtGKTs  241 (504)
                      .+.+++..|+|||||.
T Consensus        38 G~dvii~a~TGSGKTl   53 (209)
T d1q0ua_          38 GESMVGQSQTGTGKTH   53 (209)
T ss_dssp             TCCEEEECCSSHHHHH
T ss_pred             CCCeEeecccccccce
Confidence            6779999999999997

>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=84.86  E-value=0.18  Score=48.47  Aligned_cols=25  Identities=36%  Similarity=0.696  Sum_probs=21.1

Q ss_pred             cc-cccCCCCCcHHHHHHHHHHhcCC
Q 037859          228 GY-LLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       228 g~-LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      |+ +++||.|+|||++..||+-.||.
T Consensus        26 ~l~~i~G~NGsGKS~ileAi~~~lg~   51 (427)
T d1w1wa_          26 NFTSIIGPNGSGKSNMMDAISFVLGV   51 (427)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            54 78999999999999999866654

>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=84.77  E-value=0.13  Score=46.01  Aligned_cols=22  Identities=36%  Similarity=0.448  Sum_probs=19.1

Q ss_pred             ccccCCCCCcHHHHHHHHHHhc
Q 037859          229 YLLYGPPGTGKSTMIAAMANFL  250 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l  250 (504)
                      +++.|..|+|||||++.+....
T Consensus         6 ~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEeeCCCCCHHHHHHHHHhcC
Confidence            6889999999999999887753

>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=83.79  E-value=0.78  Score=44.67  Aligned_cols=49  Identities=20%  Similarity=0.320  Sum_probs=39.8

Q ss_pred             ccChhHHHHHHHhhccc---ccccCCCCCcHHHHHHHHHHhcCCcEEEEecc
Q 037859          212 AMETKKKEEIKKDLKKG---YLLYGPPGTGKSTMIAAMANFLNYDVYDLELT  260 (504)
Q Consensus       212 ~~~~~~k~~i~~~l~rg---~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  260 (504)
                      +=+|...+++++.+.+|   .+|.|-+|+|||.++.+++...+.+++.+.-+
T Consensus        14 gDQP~aI~~l~~~l~~g~~~q~l~GltGS~ka~~iA~l~~~~~rp~LVVt~n   65 (413)
T d1t5la1          14 GDQPQAIAKLVDGLRRGVKHQTLLGATGTGKTFTISNVIAQVNKPTLVIAHN   65 (413)
T ss_dssp             TTHHHHHHHHHHHHHHTCSEEEEEECTTSCHHHHHHHHHHHHTCCEEEECSS
T ss_pred             CCCHHHHHHHHHHHhcCCCcEEEeCCCCcHHHHHHHHHHHHhCCCEEEEeCC
Confidence            33456678888888444   78999999999999999999999998877543

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=81.95  E-value=0.2  Score=47.59  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=21.5

Q ss_pred             ccccCCCCCcHHHHHHHHHHhcCC
Q 037859          229 YLLYGPPGTGKSTMIAAMANFLNY  252 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~~l~~  252 (504)
                      +.+-|+-|+||||+++.++++++.
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            567899999999999999999865

>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=80.36  E-value=0.31  Score=41.25  Aligned_cols=20  Identities=40%  Similarity=0.577  Sum_probs=17.7

Q ss_pred             ccccCCCCCcHHHHHHHHHH
Q 037859          229 YLLYGPPGTGKSTMIAAMAN  248 (504)
Q Consensus       229 ~LL~GPpGtGKTsla~aiA~  248 (504)
                      ++|.|..|+|||+|+..+..
T Consensus         5 ivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhh
Confidence            68999999999999998753